++ echo USER_NAME=my,TYPE=RNAseq,SLAM=N,BASE_FOLDER=/faststorage/project/PAN_illumina/results/,FOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/,FOLDER_NAME=RNAseq_Thomas_PolyA_fullexp,RUNname=2025-01-27-RNAseq_Thomas_PolyA_fullexp,TMPdir=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/,LIB_STORAGE_FOLDER=/faststorage/project/PAN_illumina/data/libSTORAGE/,SINGULARITYdir=/home/my/AP_singu/,downDIR=/faststorage/project/PAN_illumina/tmp//NGS_downloads/,DEBUG=N,VERSION=r6.40,asmHUBpath=,ASMdir=,ASMname=,BAM=N,fwADAPTOR=,rvADAPTOR=,N_TRIMM=,rawPAIRED=N,onlyPAIRED=N,FASTQout=N,FASTQoutRAW=N,SUBSAMPLE=,MIN_LENGTH=18,MAX_LENGTH=1000,RAW=,TRIMM=Y,FIRST=6,LAST=200,INVERT=N,Ychrom=N,RANDOMmulti=N,MM=2,FILTERING_INPUT=rRNA:tRNA:mito,WIG=Y,WIG_FASTA=,spikeINnorm=N,noNORM=,EXTEND=0,COMPUTING=C,GRIDsystem=SLURM,keepTMP=N,SCRIPT_DIR=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/script-files/,BASE_UTILITY_LOCATION=/faststorage/project/PAN_illumina/utilities/AnnotationPipeline/,UTILITY_LOCATION=/faststorage/project/PAN_illumina/utilities/AnnotationPipeline/dmel/dm6/,RELEASE=,VERSION=r6.40,UTILITY_DIR=/faststorage/project/PAN_illumina/backup/scripts/AnnotationPipeline/utility-files/,nFILES=23,FILE_CONTAINING_LIBRARIES=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/files.txt,FOLDER_NAME=RNAseq_Thomas_PolyA_fullexp,GENOME_VERSION=dm6,subCOLOR=0~128~0,FORCE=,SYSTEM=EXTERN,LOGs=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/LOGs/,prepareREF=no,nSPLITS=1000000,SE=N,SE2nd=,maxCOUNT=1000000,demuxFASTA=N,autoViewLimits=,only5end=,PingPong=,DGE=N,GEO=,noSTRANDED=,FORCEimport=,exportBAM=N,exportBAMuncollapsed=N,RATIOtracks=N,GENOMEdir=/faststorage/project/PAN_illumina/results//my/dm6/,newCOLLECTION=N
++ sed 's/,/\t/g;s/"//g'
+ VARI='USER_NAME=my	TYPE=RNAseq	SLAM=N	BASE_FOLDER=/faststorage/project/PAN_illumina/results/	FOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/	FOLDER_NAME=RNAseq_Thomas_PolyA_fullexp	RUNname=2025-01-27-RNAseq_Thomas_PolyA_fullexp	TMPdir=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/	LIB_STORAGE_FOLDER=/faststorage/project/PAN_illumina/data/libSTORAGE/	SINGULARITYdir=/home/my/AP_singu/	downDIR=/faststorage/project/PAN_illumina/tmp//NGS_downloads/	DEBUG=N	VERSION=r6.40	asmHUBpath=	ASMdir=	ASMname=	BAM=N	fwADAPTOR=	rvADAPTOR=	N_TRIMM=	rawPAIRED=N	onlyPAIRED=N	FASTQout=N	FASTQoutRAW=N	SUBSAMPLE=	MIN_LENGTH=18	MAX_LENGTH=1000	RAW=	TRIMM=Y	FIRST=6	LAST=200	INVERT=N	Ychrom=N	RANDOMmulti=N	MM=2	FILTERING_INPUT=rRNA:tRNA:mito	WIG=Y	WIG_FASTA=	spikeINnorm=N	noNORM=	EXTEND=0	COMPUTING=C	GRIDsystem=SLURM	keepTMP=N	SCRIPT_DIR=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/script-files/	BASE_UTILITY_LOCATION=/faststorage/project/PAN_illumina/utilities/AnnotationPipeline/	UTILITY_LOCATION=/faststorage/project/PAN_illumina/utilities/AnnotationPipeline/dmel/dm6/	RELEASE=	VERSION=r6.40	UTILITY_DIR=/faststorage/project/PAN_illumina/backup/scripts/AnnotationPipeline/utility-files/	nFILES=23	FILE_CONTAINING_LIBRARIES=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/files.txt	FOLDER_NAME=RNAseq_Thomas_PolyA_fullexp	GENOME_VERSION=dm6	subCOLOR=0~128~0	FORCE=	SYSTEM=EXTERN	LOGs=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/LOGs/	prepareREF=no	nSPLITS=1000000	SE=N	SE2nd=	maxCOUNT=1000000	demuxFASTA=N	autoViewLimits=	only5end=	PingPong=	DGE=N	GEO=	noSTRANDED=	FORCEimport=	exportBAM=N	exportBAMuncollapsed=N	RATIOtracks=N	GENOMEdir=/faststorage/project/PAN_illumina/results//my/dm6/	newCOLLECTION=N'
+ eval 'USER_NAME=my	TYPE=RNAseq	SLAM=N	BASE_FOLDER=/faststorage/project/PAN_illumina/results/	FOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/	FOLDER_NAME=RNAseq_Thomas_PolyA_fullexp	RUNname=2025-01-27-RNAseq_Thomas_PolyA_fullexp	TMPdir=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/	LIB_STORAGE_FOLDER=/faststorage/project/PAN_illumina/data/libSTORAGE/	SINGULARITYdir=/home/my/AP_singu/	downDIR=/faststorage/project/PAN_illumina/tmp//NGS_downloads/	DEBUG=N	VERSION=r6.40	asmHUBpath=	ASMdir=	ASMname=	BAM=N	fwADAPTOR=	rvADAPTOR=	N_TRIMM=	rawPAIRED=N	onlyPAIRED=N	FASTQout=N	FASTQoutRAW=N	SUBSAMPLE=	MIN_LENGTH=18	MAX_LENGTH=1000	RAW=	TRIMM=Y	FIRST=6	LAST=200	INVERT=N	Ychrom=N	RANDOMmulti=N	MM=2	FILTERING_INPUT=rRNA:tRNA:mito	WIG=Y	WIG_FASTA=	spikeINnorm=N	noNORM=	EXTEND=0	COMPUTING=C	GRIDsystem=SLURM	keepTMP=N	SCRIPT_DIR=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/script-files/	BASE_UTILITY_LOCATION=/faststorage/project/PAN_illumina/utilities/AnnotationPipeline/	UTILITY_LOCATION=/faststorage/project/PAN_illumina/utilities/AnnotationPipeline/dmel/dm6/	RELEASE=	VERSION=r6.40	UTILITY_DIR=/faststorage/project/PAN_illumina/backup/scripts/AnnotationPipeline/utility-files/	nFILES=23	FILE_CONTAINING_LIBRARIES=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/files.txt	FOLDER_NAME=RNAseq_Thomas_PolyA_fullexp	GENOME_VERSION=dm6	subCOLOR=0~128~0	FORCE=	SYSTEM=EXTERN	LOGs=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/LOGs/	prepareREF=no	nSPLITS=1000000	SE=N	SE2nd=	maxCOUNT=1000000	demuxFASTA=N	autoViewLimits=	only5end=	PingPong=	DGE=N	GEO=	noSTRANDED=	FORCEimport=	exportBAM=N	exportBAMuncollapsed=N	RATIOtracks=N	GENOMEdir=/faststorage/project/PAN_illumina/results//my/dm6/	newCOLLECTION=N'
++ USER_NAME=my
++ TYPE=RNAseq
++ SLAM=N
++ BASE_FOLDER=/faststorage/project/PAN_illumina/results/
++ FOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/
++ FOLDER_NAME=RNAseq_Thomas_PolyA_fullexp
++ RUNname=2025-01-27-RNAseq_Thomas_PolyA_fullexp
++ TMPdir=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/
++ LIB_STORAGE_FOLDER=/faststorage/project/PAN_illumina/data/libSTORAGE/
++ SINGULARITYdir=/home/my/AP_singu/
++ downDIR=/faststorage/project/PAN_illumina/tmp//NGS_downloads/
++ DEBUG=N
++ VERSION=r6.40
++ asmHUBpath=
++ ASMdir=
++ ASMname=
++ BAM=N
++ fwADAPTOR=
++ rvADAPTOR=
++ N_TRIMM=
++ rawPAIRED=N
++ onlyPAIRED=N
++ FASTQout=N
++ FASTQoutRAW=N
++ SUBSAMPLE=
++ MIN_LENGTH=18
++ MAX_LENGTH=1000
++ RAW=
++ TRIMM=Y
++ FIRST=6
++ LAST=200
++ INVERT=N
++ Ychrom=N
++ RANDOMmulti=N
++ MM=2
++ FILTERING_INPUT=rRNA:tRNA:mito
++ WIG=Y
++ WIG_FASTA=
++ spikeINnorm=N
++ noNORM=
++ EXTEND=0
++ COMPUTING=C
++ GRIDsystem=SLURM
++ keepTMP=N
++ SCRIPT_DIR=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/script-files/
++ BASE_UTILITY_LOCATION=/faststorage/project/PAN_illumina/utilities/AnnotationPipeline/
++ UTILITY_LOCATION=/faststorage/project/PAN_illumina/utilities/AnnotationPipeline/dmel/dm6/
++ RELEASE=
++ VERSION=r6.40
++ UTILITY_DIR=/faststorage/project/PAN_illumina/backup/scripts/AnnotationPipeline/utility-files/
++ nFILES=23
++ FILE_CONTAINING_LIBRARIES=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/files.txt
++ FOLDER_NAME=RNAseq_Thomas_PolyA_fullexp
++ GENOME_VERSION=dm6
++ subCOLOR=0~128~0
++ FORCE=
++ SYSTEM=EXTERN
++ LOGs=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/LOGs/
++ prepareREF=no
++ nSPLITS=1000000
++ SE=N
++ SE2nd=
++ maxCOUNT=1000000
++ demuxFASTA=N
++ autoViewLimits=
++ only5end=
++ PingPong=
++ DGE=N
++ GEO=
++ noSTRANDED=
++ FORCEimport=
++ exportBAM=N
++ exportBAMuncollapsed=N
++ RATIOtracks=N
++ GENOMEdir=/faststorage/project/PAN_illumina/results//my/dm6/
++ newCOLLECTION=N
+ echo USER_NAME=my,TYPE=RNAseq,SLAM=N,BASE_FOLDER=/faststorage/project/PAN_illumina/results/,FOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/,FOLDER_NAME=RNAseq_Thomas_PolyA_fullexp,RUNname=2025-01-27-RNAseq_Thomas_PolyA_fullexp,TMPdir=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/,LIB_STORAGE_FOLDER=/faststorage/project/PAN_illumina/data/libSTORAGE/,SINGULARITYdir=/home/my/AP_singu/,downDIR=/faststorage/project/PAN_illumina/tmp//NGS_downloads/,DEBUG=N,VERSION=r6.40,asmHUBpath=,ASMdir=,ASMname=,BAM=N,fwADAPTOR=,rvADAPTOR=,N_TRIMM=,rawPAIRED=N,onlyPAIRED=N,FASTQout=N,FASTQoutRAW=N,SUBSAMPLE=,MIN_LENGTH=18,MAX_LENGTH=1000,RAW=,TRIMM=Y,FIRST=6,LAST=200,INVERT=N,Ychrom=N,RANDOMmulti=N,MM=2,FILTERING_INPUT=rRNA:tRNA:mito,WIG=Y,WIG_FASTA=,spikeINnorm=N,noNORM=,EXTEND=0,COMPUTING=C,GRIDsystem=SLURM,keepTMP=N,SCRIPT_DIR=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/script-files/,BASE_UTILITY_LOCATION=/faststorage/project/PAN_illumina/utilities/AnnotationPipeline/,UTILITY_LOCATION=/faststorage/project/PAN_illumina/utilities/AnnotationPipeline/dmel/dm6/,RELEASE=,VERSION=r6.40,UTILITY_DIR=/faststorage/project/PAN_illumina/backup/scripts/AnnotationPipeline/utility-files/,nFILES=23,FILE_CONTAINING_LIBRARIES=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/files.txt,FOLDER_NAME=RNAseq_Thomas_PolyA_fullexp,GENOME_VERSION=dm6,subCOLOR=0~128~0,FORCE=,SYSTEM=EXTERN,LOGs=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/LOGs/,prepareREF=no,nSPLITS=1000000,SE=N,SE2nd=,maxCOUNT=1000000,demuxFASTA=N,autoViewLimits=,only5end=,PingPong=,DGE=N,GEO=,noSTRANDED=,FORCEimport=,exportBAM=N,exportBAMuncollapsed=N,RATIOtracks=N,GENOMEdir=/faststorage/project/PAN_illumina/results//my/dm6/,newCOLLECTION=N
+ sed 's/,/\n/g'
++ date +%s
+ TIME=1738015534
+ TIMEx=1738015534
+ [[ SLURM == SLURM ]]
+ CORES=2
+ echo 2
+ source /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/script-files/tools
++ set -a
+ locTMP=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/
+ mkdir -p /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/
+ chmod 777 /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/
+ TMPDIR=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/
+ cd /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/
+ echo /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/
+ mkdir /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/plots
+ cat /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/files.txt
+ tr ' ' '\t'
+ cut -f 2
+ rm -rf /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/annotation_counts.txt
++ cat /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/files.txt
++ tr '\n' '\t'
++ awk '{ print $2 }'
+ NAMElist='HsBam_polyA_moonKD_42h_A	HsBam_polyA_moonKD_42h_B	HsBam_polyA_piwiKD_42h_A	HsBam_polyA_whiteKD_42h_A	HsBam_polyA_piwiKD_42h_B	HsBam_polyA_white_00h_E	HsBam_polyA_whiteKD_42h_B	OV_polyA_piwiKD_B	HsBam_polyA_piwiKD_00h_A	HsBam_piwiKD_68h_A	HsBam_polyA_moonKD_68h_A	HsBam_polyA_moonKD_00h_A	Ov_polyA_whiteKD_A	Ov_polyA_piwiKD_A	HsBam_polyA_piwiKD_00h_B	HsBam_piwiKD_68h_B	HsBam_polyA_moonKD_68h_B	HsBam_polyA_moonKD_00h_B	Ov_polyA_whiteKD_B	HsBam_polyA_whiteKD_68h_A	HsBam_polyA_whiteKD_00h_A	HsBam_polyA_whiteKD_68h_B	HsBam_polyA_whiteKD_00h_B	'
++ printf 'annotation\tHsBam_polyA_moonKD_42h_A	HsBam_polyA_moonKD_42h_B	HsBam_polyA_piwiKD_42h_A	HsBam_polyA_whiteKD_42h_A	HsBam_polyA_piwiKD_42h_B	HsBam_polyA_white_00h_E	HsBam_polyA_whiteKD_42h_B	OV_polyA_piwiKD_B	HsBam_polyA_piwiKD_00h_A	HsBam_piwiKD_68h_A	HsBam_polyA_moonKD_68h_A	HsBam_polyA_moonKD_00h_A	Ov_polyA_whiteKD_A	Ov_polyA_piwiKD_A	HsBam_polyA_piwiKD_00h_B	HsBam_piwiKD_68h_B	HsBam_polyA_moonKD_68h_B	HsBam_polyA_moonKD_00h_B	Ov_polyA_whiteKD_B	HsBam_polyA_whiteKD_68h_A	HsBam_polyA_whiteKD_00h_A	HsBam_polyA_whiteKD_68h_B	HsBam_polyA_whiteKD_00h_B	'
+ NAMElistANN='annotation	HsBam_polyA_moonKD_42h_A	HsBam_polyA_moonKD_42h_B	HsBam_polyA_piwiKD_42h_A	HsBam_polyA_whiteKD_42h_A	HsBam_polyA_piwiKD_42h_B	HsBam_polyA_white_00h_E	HsBam_polyA_whiteKD_42h_B	OV_polyA_piwiKD_B	HsBam_polyA_piwiKD_00h_A	HsBam_piwiKD_68h_A	HsBam_polyA_moonKD_68h_A	HsBam_polyA_moonKD_00h_A	Ov_polyA_whiteKD_A	Ov_polyA_piwiKD_A	HsBam_polyA_piwiKD_00h_B	HsBam_piwiKD_68h_B	HsBam_polyA_moonKD_68h_B	HsBam_polyA_moonKD_00h_B	Ov_polyA_whiteKD_B	HsBam_polyA_whiteKD_68h_A	HsBam_polyA_whiteKD_00h_A	HsBam_polyA_whiteKD_68h_B	HsBam_polyA_whiteKD_00h_B	'
++ printf 'length\tHsBam_polyA_moonKD_42h_A	HsBam_polyA_moonKD_42h_B	HsBam_polyA_piwiKD_42h_A	HsBam_polyA_whiteKD_42h_A	HsBam_polyA_piwiKD_42h_B	HsBam_polyA_white_00h_E	HsBam_polyA_whiteKD_42h_B	OV_polyA_piwiKD_B	HsBam_polyA_piwiKD_00h_A	HsBam_piwiKD_68h_A	HsBam_polyA_moonKD_68h_A	HsBam_polyA_moonKD_00h_A	Ov_polyA_whiteKD_A	Ov_polyA_piwiKD_A	HsBam_polyA_piwiKD_00h_B	HsBam_piwiKD_68h_B	HsBam_polyA_moonKD_68h_B	HsBam_polyA_moonKD_00h_B	Ov_polyA_whiteKD_B	HsBam_polyA_whiteKD_68h_A	HsBam_polyA_whiteKD_00h_A	HsBam_polyA_whiteKD_68h_B	HsBam_polyA_whiteKD_00h_B	'
+ NAMElistSIZE='length	HsBam_polyA_moonKD_42h_A	HsBam_polyA_moonKD_42h_B	HsBam_polyA_piwiKD_42h_A	HsBam_polyA_whiteKD_42h_A	HsBam_polyA_piwiKD_42h_B	HsBam_polyA_white_00h_E	HsBam_polyA_whiteKD_42h_B	OV_polyA_piwiKD_B	HsBam_polyA_piwiKD_00h_A	HsBam_piwiKD_68h_A	HsBam_polyA_moonKD_68h_A	HsBam_polyA_moonKD_00h_A	Ov_polyA_whiteKD_A	Ov_polyA_piwiKD_A	HsBam_polyA_piwiKD_00h_B	HsBam_piwiKD_68h_B	HsBam_polyA_moonKD_68h_B	HsBam_polyA_moonKD_00h_B	Ov_polyA_whiteKD_B	HsBam_polyA_whiteKD_68h_A	HsBam_polyA_whiteKD_00h_A	HsBam_polyA_whiteKD_68h_B	HsBam_polyA_whiteKD_00h_B	'
+ echo annotation HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B HsBam_polyA_whiteKD_00h_B
+ tr ' ' '\t'
+ for CATEGORY in adaptor_dimer artifact_filtered length_filtered_short length_filtered_long N_filtered reads_after_filtering reads_not_mapped
+ SWITCH=N
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324083/324083_S6_R1_001.fastq.gz HsBam_polyA_moonKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/
+ [[ N == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0'
+ SWITCH=Y
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324094/324094_S17_R1_001.fastq.gz HsBam_polyA_moonKD_42h_B
++ tr ' ' '\t'
++ cut -f 2
+ NAME=HsBam_polyA_moonKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/
+ [[ Y == N ]]
++ grep adaptor_dimer
++ awk '{ print $NF}'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/log.txt
+ X=0
+ Xlist='adaptor_dimer 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324082/324082_S5_R1_001.fastq.gz HsBam_polyA_piwiKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324081/324081_S4_R1_001.fastq.gz HsBam_polyA_whiteKD_42h_A
++ tr ' ' '\t'
++ cut -f 2
+ NAME=HsBam_polyA_whiteKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/log.txt
++ grep adaptor_dimer
++ awk '{ print $NF}'
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324093/324093_S16_R1_001.fastq.gz HsBam_polyA_piwiKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324100/324100_S23_R1_001.fastq.gz HsBam_polyA_white_00h_E
++ tr ' ' '\t'
++ cut -f 2
+ NAME=HsBam_polyA_white_00h_E
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324092/324092_S15_R1_001.fastq.gz HsBam_polyA_whiteKD_42h_B
++ tr ' ' '\t'
++ cut -f 2
+ NAME=HsBam_polyA_whiteKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324099/324099_S22_R1_001.fastq.gz OV_polyA_piwiKD_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=OV_polyA_piwiKD_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324079/324079_S2_R1_001.fastq.gz HsBam_polyA_piwiKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324085/324085_S8_R1_001.fastq.gz HsBam_piwiKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_piwiKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324086/324086_S9_R1_001.fastq.gz HsBam_polyA_moonKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324080/324080_S3_R1_001.fastq.gz HsBam_polyA_moonKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324087/324087_S10_R1_001.fastq.gz Ov_polyA_whiteKD_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_whiteKD_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324088/324088_S11_R1_001.fastq.gz Ov_polyA_piwiKD_A
++ tr ' ' '\t'
++ cut -f 2
+ NAME=Ov_polyA_piwiKD_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324090/324090_S13_R1_001.fastq.gz HsBam_polyA_piwiKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324096/324096_S19_R1_001.fastq.gz HsBam_piwiKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_piwiKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324097/324097_S20_R1_001.fastq.gz HsBam_polyA_moonKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324091/324091_S14_R1_001.fastq.gz HsBam_polyA_moonKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/log.txt
++ grep adaptor_dimer
++ awk '{ print $NF}'
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324098/324098_S21_R1_001.fastq.gz Ov_polyA_whiteKD_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_whiteKD_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324084/324084_S7_R1_001.fastq.gz HsBam_polyA_whiteKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324078/324078_S1_R1_001.fastq.gz HsBam_polyA_whiteKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324095/324095_S18_R1_001.fastq.gz HsBam_polyA_whiteKD_68h_B
++ tr ' ' '\t'
++ cut -f 2
+ NAME=HsBam_polyA_whiteKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324089/324089_S12_R1_001.fastq.gz HsBam_polyA_whiteKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep adaptor_dimer
+ X=0
+ Xlist='adaptor_dimer 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
+ echo adaptor_dimer 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
+ tr ' ' '\t'
+ for CATEGORY in adaptor_dimer artifact_filtered length_filtered_short length_filtered_long N_filtered reads_after_filtering reads_not_mapped
+ SWITCH=N
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324083/324083_S6_R1_001.fastq.gz HsBam_polyA_moonKD_42h_A
++ tr ' ' '\t'
++ cut -f 2
+ NAME=HsBam_polyA_moonKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/
+ [[ N == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=306923
+ Xlist='artifact_filtered 306923'
+ SWITCH=Y
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324094/324094_S17_R1_001.fastq.gz HsBam_polyA_moonKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=11009
+ Xlist='artifact_filtered 306923 11009'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324082/324082_S5_R1_001.fastq.gz HsBam_polyA_piwiKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=238923
+ Xlist='artifact_filtered 306923 11009 238923'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324081/324081_S4_R1_001.fastq.gz HsBam_polyA_whiteKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=163622
+ Xlist='artifact_filtered 306923 11009 238923 163622'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324093/324093_S16_R1_001.fastq.gz HsBam_polyA_piwiKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=40113
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324100/324100_S23_R1_001.fastq.gz HsBam_polyA_white_00h_E
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_white_00h_E
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=22533
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324092/324092_S15_R1_001.fastq.gz HsBam_polyA_whiteKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=15977
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533 15977'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324099/324099_S22_R1_001.fastq.gz OV_polyA_piwiKD_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=OV_polyA_piwiKD_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=18914
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533 15977 18914'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324079/324079_S2_R1_001.fastq.gz HsBam_polyA_piwiKD_00h_A
++ tr ' ' '\t'
++ cut -f 2
+ NAME=HsBam_polyA_piwiKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=151011
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533 15977 18914 151011'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324085/324085_S8_R1_001.fastq.gz HsBam_piwiKD_68h_A
++ tr ' ' '\t'
++ cut -f 2
+ NAME=HsBam_piwiKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=12264
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533 15977 18914 151011 12264'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324086/324086_S9_R1_001.fastq.gz HsBam_polyA_moonKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=159185
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533 15977 18914 151011 12264 159185'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324080/324080_S3_R1_001.fastq.gz HsBam_polyA_moonKD_00h_A
++ tr ' ' '\t'
++ cut -f 2
+ NAME=HsBam_polyA_moonKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/log.txt
++ grep artifact_filtered
++ awk '{ print $NF}'
+ X=194725
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533 15977 18914 151011 12264 159185 194725'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324087/324087_S10_R1_001.fastq.gz Ov_polyA_whiteKD_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_whiteKD_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=9490
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533 15977 18914 151011 12264 159185 194725 9490'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324088/324088_S11_R1_001.fastq.gz Ov_polyA_piwiKD_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_piwiKD_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=11392
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533 15977 18914 151011 12264 159185 194725 9490 11392'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324090/324090_S13_R1_001.fastq.gz HsBam_polyA_piwiKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=24350
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533 15977 18914 151011 12264 159185 194725 9490 11392 24350'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324096/324096_S19_R1_001.fastq.gz HsBam_piwiKD_68h_B
++ tr ' ' '\t'
++ cut -f 2
+ NAME=HsBam_piwiKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=31541
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533 15977 18914 151011 12264 159185 194725 9490 11392 24350 31541'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324097/324097_S20_R1_001.fastq.gz HsBam_polyA_moonKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=13142
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533 15977 18914 151011 12264 159185 194725 9490 11392 24350 31541 13142'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324091/324091_S14_R1_001.fastq.gz HsBam_polyA_moonKD_00h_B
++ tr ' ' '\t'
++ cut -f 2
+ NAME=HsBam_polyA_moonKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=16273
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533 15977 18914 151011 12264 159185 194725 9490 11392 24350 31541 13142 16273'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324098/324098_S21_R1_001.fastq.gz Ov_polyA_whiteKD_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_whiteKD_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=11434
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533 15977 18914 151011 12264 159185 194725 9490 11392 24350 31541 13142 16273 11434'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324084/324084_S7_R1_001.fastq.gz HsBam_polyA_whiteKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=14295
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533 15977 18914 151011 12264 159185 194725 9490 11392 24350 31541 13142 16273 11434 14295'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324078/324078_S1_R1_001.fastq.gz HsBam_polyA_whiteKD_00h_A
++ tr ' ' '\t'
++ cut -f 2
+ NAME=HsBam_polyA_whiteKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep artifact_filtered
+ X=19536
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533 15977 18914 151011 12264 159185 194725 9490 11392 24350 31541 13142 16273 11434 14295 19536'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324095/324095_S18_R1_001.fastq.gz HsBam_polyA_whiteKD_68h_B
++ tr ' ' '\t'
++ cut -f 2
+ NAME=HsBam_polyA_whiteKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/log.txt
++ grep artifact_filtered
++ awk '{ print $NF}'
+ X=7769
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533 15977 18914 151011 12264 159185 194725 9490 11392 24350 31541 13142 16273 11434 14295 19536 7769'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324089/324089_S12_R1_001.fastq.gz HsBam_polyA_whiteKD_00h_B
++ tr ' ' '\t'
++ cut -f 2
+ NAME=HsBam_polyA_whiteKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/log.txt
++ grep artifact_filtered
++ awk '{ print $NF}'
+ X=10110
+ Xlist='artifact_filtered 306923 11009 238923 163622 40113 22533 15977 18914 151011 12264 159185 194725 9490 11392 24350 31541 13142 16273 11434 14295 19536 7769 10110'
+ read LINE
+ echo artifact_filtered 306923 11009 238923 163622 40113 22533 15977 18914 151011 12264 159185 194725 9490 11392 24350 31541 13142 16273 11434 14295 19536 7769 10110
+ tr ' ' '\t'
+ for CATEGORY in adaptor_dimer artifact_filtered length_filtered_short length_filtered_long N_filtered reads_after_filtering reads_not_mapped
+ SWITCH=N
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324083/324083_S6_R1_001.fastq.gz HsBam_polyA_moonKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/
+ [[ N == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0'
+ SWITCH=Y
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324094/324094_S17_R1_001.fastq.gz HsBam_polyA_moonKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324082/324082_S5_R1_001.fastq.gz HsBam_polyA_piwiKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324081/324081_S4_R1_001.fastq.gz HsBam_polyA_whiteKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324093/324093_S16_R1_001.fastq.gz HsBam_polyA_piwiKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324100/324100_S23_R1_001.fastq.gz HsBam_polyA_white_00h_E
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_white_00h_E
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/log.txt
++ grep length_filtered_short
++ awk '{ print $NF}'
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324092/324092_S15_R1_001.fastq.gz HsBam_polyA_whiteKD_42h_B
++ tr ' ' '\t'
++ cut -f 2
+ NAME=HsBam_polyA_whiteKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324099/324099_S22_R1_001.fastq.gz OV_polyA_piwiKD_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=OV_polyA_piwiKD_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324079/324079_S2_R1_001.fastq.gz HsBam_polyA_piwiKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324085/324085_S8_R1_001.fastq.gz HsBam_piwiKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_piwiKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324086/324086_S9_R1_001.fastq.gz HsBam_polyA_moonKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324080/324080_S3_R1_001.fastq.gz HsBam_polyA_moonKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324087/324087_S10_R1_001.fastq.gz Ov_polyA_whiteKD_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_whiteKD_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324088/324088_S11_R1_001.fastq.gz Ov_polyA_piwiKD_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_piwiKD_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324090/324090_S13_R1_001.fastq.gz HsBam_polyA_piwiKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324096/324096_S19_R1_001.fastq.gz HsBam_piwiKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_piwiKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324097/324097_S20_R1_001.fastq.gz HsBam_polyA_moonKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324091/324091_S14_R1_001.fastq.gz HsBam_polyA_moonKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324098/324098_S21_R1_001.fastq.gz Ov_polyA_whiteKD_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_whiteKD_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324084/324084_S7_R1_001.fastq.gz HsBam_polyA_whiteKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324078/324078_S1_R1_001.fastq.gz HsBam_polyA_whiteKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324095/324095_S18_R1_001.fastq.gz HsBam_polyA_whiteKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324089/324089_S12_R1_001.fastq.gz HsBam_polyA_whiteKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_short
+ X=0
+ Xlist='length_filtered_short 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
+ echo length_filtered_short 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
+ tr ' ' '\t'
+ for CATEGORY in adaptor_dimer artifact_filtered length_filtered_short length_filtered_long N_filtered reads_after_filtering reads_not_mapped
+ SWITCH=N
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324083/324083_S6_R1_001.fastq.gz HsBam_polyA_moonKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/
+ [[ N == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0'
+ SWITCH=Y
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324094/324094_S17_R1_001.fastq.gz HsBam_polyA_moonKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324082/324082_S5_R1_001.fastq.gz HsBam_polyA_piwiKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324081/324081_S4_R1_001.fastq.gz HsBam_polyA_whiteKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324093/324093_S16_R1_001.fastq.gz HsBam_polyA_piwiKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324100/324100_S23_R1_001.fastq.gz HsBam_polyA_white_00h_E
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_white_00h_E
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324092/324092_S15_R1_001.fastq.gz HsBam_polyA_whiteKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324099/324099_S22_R1_001.fastq.gz OV_polyA_piwiKD_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=OV_polyA_piwiKD_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324079/324079_S2_R1_001.fastq.gz HsBam_polyA_piwiKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324085/324085_S8_R1_001.fastq.gz HsBam_piwiKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_piwiKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324086/324086_S9_R1_001.fastq.gz HsBam_polyA_moonKD_68h_A
++ tr ' ' '\t'
++ cut -f 2
+ NAME=HsBam_polyA_moonKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324080/324080_S3_R1_001.fastq.gz HsBam_polyA_moonKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324087/324087_S10_R1_001.fastq.gz Ov_polyA_whiteKD_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_whiteKD_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324088/324088_S11_R1_001.fastq.gz Ov_polyA_piwiKD_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_piwiKD_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324090/324090_S13_R1_001.fastq.gz HsBam_polyA_piwiKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324096/324096_S19_R1_001.fastq.gz HsBam_piwiKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_piwiKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324097/324097_S20_R1_001.fastq.gz HsBam_polyA_moonKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324091/324091_S14_R1_001.fastq.gz HsBam_polyA_moonKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/log.txt
++ grep length_filtered_long
++ awk '{ print $NF}'
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324098/324098_S21_R1_001.fastq.gz Ov_polyA_whiteKD_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_whiteKD_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324084/324084_S7_R1_001.fastq.gz HsBam_polyA_whiteKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324078/324078_S1_R1_001.fastq.gz HsBam_polyA_whiteKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324095/324095_S18_R1_001.fastq.gz HsBam_polyA_whiteKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324089/324089_S12_R1_001.fastq.gz HsBam_polyA_whiteKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep length_filtered_long
+ X=0
+ Xlist='length_filtered_long 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0'
+ read LINE
+ echo length_filtered_long 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
+ tr ' ' '\t'
+ for CATEGORY in adaptor_dimer artifact_filtered length_filtered_short length_filtered_long N_filtered reads_after_filtering reads_not_mapped
+ SWITCH=N
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324083/324083_S6_R1_001.fastq.gz HsBam_polyA_moonKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/
+ [[ N == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=120842
+ Xlist='N_filtered 120842'
+ SWITCH=Y
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324094/324094_S17_R1_001.fastq.gz HsBam_polyA_moonKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=72297
+ Xlist='N_filtered 120842 72297'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324082/324082_S5_R1_001.fastq.gz HsBam_polyA_piwiKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=93245
+ Xlist='N_filtered 120842 72297 93245'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324081/324081_S4_R1_001.fastq.gz HsBam_polyA_whiteKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=101904
+ Xlist='N_filtered 120842 72297 93245 101904'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324093/324093_S16_R1_001.fastq.gz HsBam_polyA_piwiKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=104281
+ Xlist='N_filtered 120842 72297 93245 101904 104281'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324100/324100_S23_R1_001.fastq.gz HsBam_polyA_white_00h_E
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_white_00h_E
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=75495
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324092/324092_S15_R1_001.fastq.gz HsBam_polyA_whiteKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=75268
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495 75268'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324099/324099_S22_R1_001.fastq.gz OV_polyA_piwiKD_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=OV_polyA_piwiKD_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=93491
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495 75268 93491'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324079/324079_S2_R1_001.fastq.gz HsBam_polyA_piwiKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=89485
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495 75268 93491 89485'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324085/324085_S8_R1_001.fastq.gz HsBam_piwiKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_piwiKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=51520
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495 75268 93491 89485 51520'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324086/324086_S9_R1_001.fastq.gz HsBam_polyA_moonKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=114851
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495 75268 93491 89485 51520 114851'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324080/324080_S3_R1_001.fastq.gz HsBam_polyA_moonKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=143865
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495 75268 93491 89485 51520 114851 143865'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324087/324087_S10_R1_001.fastq.gz Ov_polyA_whiteKD_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_whiteKD_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=78148
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495 75268 93491 89485 51520 114851 143865 78148'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324088/324088_S11_R1_001.fastq.gz Ov_polyA_piwiKD_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_piwiKD_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=60341
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495 75268 93491 89485 51520 114851 143865 78148 60341'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324090/324090_S13_R1_001.fastq.gz HsBam_polyA_piwiKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=92516
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495 75268 93491 89485 51520 114851 143865 78148 60341 92516'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324096/324096_S19_R1_001.fastq.gz HsBam_piwiKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_piwiKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=73728
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495 75268 93491 89485 51520 114851 143865 78148 60341 92516 73728'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324097/324097_S20_R1_001.fastq.gz HsBam_polyA_moonKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=77732
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495 75268 93491 89485 51520 114851 143865 78148 60341 92516 73728 77732'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324091/324091_S14_R1_001.fastq.gz HsBam_polyA_moonKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=66788
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495 75268 93491 89485 51520 114851 143865 78148 60341 92516 73728 77732 66788'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324098/324098_S21_R1_001.fastq.gz Ov_polyA_whiteKD_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_whiteKD_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=76015
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495 75268 93491 89485 51520 114851 143865 78148 60341 92516 73728 77732 66788 76015'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324084/324084_S7_R1_001.fastq.gz HsBam_polyA_whiteKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=66588
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495 75268 93491 89485 51520 114851 143865 78148 60341 92516 73728 77732 66788 76015 66588'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324078/324078_S1_R1_001.fastq.gz HsBam_polyA_whiteKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=131813
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495 75268 93491 89485 51520 114851 143865 78148 60341 92516 73728 77732 66788 76015 66588 131813'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324095/324095_S18_R1_001.fastq.gz HsBam_polyA_whiteKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=67545
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495 75268 93491 89485 51520 114851 143865 78148 60341 92516 73728 77732 66788 76015 66588 131813 67545'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324089/324089_S12_R1_001.fastq.gz HsBam_polyA_whiteKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep N_filtered
+ X=71173
+ Xlist='N_filtered 120842 72297 93245 101904 104281 75495 75268 93491 89485 51520 114851 143865 78148 60341 92516 73728 77732 66788 76015 66588 131813 67545 71173'
+ read LINE
+ echo N_filtered 120842 72297 93245 101904 104281 75495 75268 93491 89485 51520 114851 143865 78148 60341 92516 73728 77732 66788 76015 66588 131813 67545 71173
+ tr ' ' '\t'
+ for CATEGORY in adaptor_dimer artifact_filtered length_filtered_short length_filtered_long N_filtered reads_after_filtering reads_not_mapped
+ SWITCH=N
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324083/324083_S6_R1_001.fastq.gz HsBam_polyA_moonKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/
+ [[ N == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=35504524
+ Xlist='reads_after_filtering 35504524'
+ SWITCH=Y
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324094/324094_S17_R1_001.fastq.gz HsBam_polyA_moonKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=21406321
+ Xlist='reads_after_filtering 35504524 21406321'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324082/324082_S5_R1_001.fastq.gz HsBam_polyA_piwiKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=27379334
+ Xlist='reads_after_filtering 35504524 21406321 27379334'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324081/324081_S4_R1_001.fastq.gz HsBam_polyA_whiteKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=30069826
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324093/324093_S16_R1_001.fastq.gz HsBam_polyA_piwiKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=30822804
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804'
+ read LINE
++ tr ' ' '\t'
++ cut -f 2
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324100/324100_S23_R1_001.fastq.gz HsBam_polyA_white_00h_E
+ NAME=HsBam_polyA_white_00h_E
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=22243756
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324092/324092_S15_R1_001.fastq.gz HsBam_polyA_whiteKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=22491485
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324099/324099_S22_R1_001.fastq.gz OV_polyA_piwiKD_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=OV_polyA_piwiKD_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=27653236
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485 27653236'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324079/324079_S2_R1_001.fastq.gz HsBam_polyA_piwiKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=26439718
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485 27653236 26439718'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324085/324085_S8_R1_001.fastq.gz HsBam_piwiKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_piwiKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=15153473
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485 27653236 26439718 15153473'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324086/324086_S9_R1_001.fastq.gz HsBam_polyA_moonKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=33999211
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485 27653236 26439718 15153473 33999211'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324080/324080_S3_R1_001.fastq.gz HsBam_polyA_moonKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=42102485
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485 27653236 26439718 15153473 33999211 42102485'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324087/324087_S10_R1_001.fastq.gz Ov_polyA_whiteKD_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_whiteKD_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=23101098
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485 27653236 26439718 15153473 33999211 42102485 23101098'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324088/324088_S11_R1_001.fastq.gz Ov_polyA_piwiKD_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_piwiKD_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=17831816
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485 27653236 26439718 15153473 33999211 42102485 23101098 17831816'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324090/324090_S13_R1_001.fastq.gz HsBam_polyA_piwiKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=27653750
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485 27653236 26439718 15153473 33999211 42102485 23101098 17831816 27653750'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324096/324096_S19_R1_001.fastq.gz HsBam_piwiKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_piwiKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=21732438
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485 27653236 26439718 15153473 33999211 42102485 23101098 17831816 27653750 21732438'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324097/324097_S20_R1_001.fastq.gz HsBam_polyA_moonKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=22999454
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485 27653236 26439718 15153473 33999211 42102485 23101098 17831816 27653750 21732438 22999454'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324091/324091_S14_R1_001.fastq.gz HsBam_polyA_moonKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=19609882
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485 27653236 26439718 15153473 33999211 42102485 23101098 17831816 27653750 21732438 22999454 19609882'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324098/324098_S21_R1_001.fastq.gz Ov_polyA_whiteKD_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_whiteKD_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=22416899
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485 27653236 26439718 15153473 33999211 42102485 23101098 17831816 27653750 21732438 22999454 19609882 22416899'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324084/324084_S7_R1_001.fastq.gz HsBam_polyA_whiteKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=19550114
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485 27653236 26439718 15153473 33999211 42102485 23101098 17831816 27653750 21732438 22999454 19609882 22416899 19550114'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324078/324078_S1_R1_001.fastq.gz HsBam_polyA_whiteKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=38869928
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485 27653236 26439718 15153473 33999211 42102485 23101098 17831816 27653750 21732438 22999454 19609882 22416899 19550114 38869928'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324095/324095_S18_R1_001.fastq.gz HsBam_polyA_whiteKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=19980194
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485 27653236 26439718 15153473 33999211 42102485 23101098 17831816 27653750 21732438 22999454 19609882 22416899 19550114 38869928 19980194'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324089/324089_S12_R1_001.fastq.gz HsBam_polyA_whiteKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_after_filtering
+ X=21005239
+ Xlist='reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485 27653236 26439718 15153473 33999211 42102485 23101098 17831816 27653750 21732438 22999454 19609882 22416899 19550114 38869928 19980194 21005239'
+ read LINE
+ echo reads_after_filtering 35504524 21406321 27379334 30069826 30822804 22243756 22491485 27653236 26439718 15153473 33999211 42102485 23101098 17831816 27653750 21732438 22999454 19609882 22416899 19550114 38869928 19980194 21005239
+ tr ' ' '\t'
+ for CATEGORY in adaptor_dimer artifact_filtered length_filtered_short length_filtered_long N_filtered reads_after_filtering reads_not_mapped
+ SWITCH=N
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324083/324083_S6_R1_001.fastq.gz HsBam_polyA_moonKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/
+ [[ N == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=3620030
+ Xlist='reads_not_mapped 3620030'
+ SWITCH=Y
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324094/324094_S17_R1_001.fastq.gz HsBam_polyA_moonKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=2498497
+ Xlist='reads_not_mapped 3620030 2498497'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324082/324082_S5_R1_001.fastq.gz HsBam_polyA_piwiKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=3250987
+ Xlist='reads_not_mapped 3620030 2498497 3250987'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324081/324081_S4_R1_001.fastq.gz HsBam_polyA_whiteKD_42h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_42h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=3178598
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324093/324093_S16_R1_001.fastq.gz HsBam_polyA_piwiKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=3503208
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324100/324100_S23_R1_001.fastq.gz HsBam_polyA_white_00h_E
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_white_00h_E
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=3089605
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324092/324092_S15_R1_001.fastq.gz HsBam_polyA_whiteKD_42h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_42h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=2558760
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324099/324099_S22_R1_001.fastq.gz OV_polyA_piwiKD_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=OV_polyA_piwiKD_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=3461786
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760 3461786'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324079/324079_S2_R1_001.fastq.gz HsBam_polyA_piwiKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=2874507
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760 3461786 2874507'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324085/324085_S8_R1_001.fastq.gz HsBam_piwiKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_piwiKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=1501653
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760 3461786 2874507 1501653'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324086/324086_S9_R1_001.fastq.gz HsBam_polyA_moonKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=3383539
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760 3461786 2874507 1501653 3383539'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324080/324080_S3_R1_001.fastq.gz HsBam_polyA_moonKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=4449209
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760 3461786 2874507 1501653 3383539 4449209'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324087/324087_S10_R1_001.fastq.gz Ov_polyA_whiteKD_A
++ tr ' ' '\t'
++ cut -f 2
+ NAME=Ov_polyA_whiteKD_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=2243936
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760 3461786 2874507 1501653 3383539 4449209 2243936'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324088/324088_S11_R1_001.fastq.gz Ov_polyA_piwiKD_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_piwiKD_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=1888651
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760 3461786 2874507 1501653 3383539 4449209 2243936 1888651'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324090/324090_S13_R1_001.fastq.gz HsBam_polyA_piwiKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_piwiKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=3517176
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760 3461786 2874507 1501653 3383539 4449209 2243936 1888651 3517176'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324096/324096_S19_R1_001.fastq.gz HsBam_piwiKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_piwiKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=2665608
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760 3461786 2874507 1501653 3383539 4449209 2243936 1888651 3517176 2665608'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324097/324097_S20_R1_001.fastq.gz HsBam_polyA_moonKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_moonKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=2758401
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760 3461786 2874507 1501653 3383539 4449209 2243936 1888651 3517176 2665608 2758401'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324091/324091_S14_R1_001.fastq.gz HsBam_polyA_moonKD_00h_B
++ tr ' ' '\t'
++ cut -f 2
+ NAME=HsBam_polyA_moonKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=2497406
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760 3461786 2874507 1501653 3383539 4449209 2243936 1888651 3517176 2665608 2758401 2497406'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324098/324098_S21_R1_001.fastq.gz Ov_polyA_whiteKD_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=Ov_polyA_whiteKD_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=2657827
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760 3461786 2874507 1501653 3383539 4449209 2243936 1888651 3517176 2665608 2758401 2497406 2657827'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324084/324084_S7_R1_001.fastq.gz HsBam_polyA_whiteKD_68h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_68h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=1881759
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760 3461786 2874507 1501653 3383539 4449209 2243936 1888651 3517176 2665608 2758401 2497406 2657827 1881759'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324078/324078_S1_R1_001.fastq.gz HsBam_polyA_whiteKD_00h_A
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_00h_A
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=4351133
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760 3461786 2874507 1501653 3383539 4449209 2243936 1888651 3517176 2665608 2758401 2497406 2657827 1881759 4351133'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324095/324095_S18_R1_001.fastq.gz HsBam_polyA_whiteKD_68h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_68h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=2047821
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760 3461786 2874507 1501653 3383539 4449209 2243936 1888651 3517176 2665608 2758401 2497406 2657827 1881759 4351133 2047821'
+ read LINE
++ echo /faststorage/project/PAN_illumina/backup/data/libSTORAGE/2025_01_25_RNAseq_MY_22VCLJLT3_1_R18168/demultiplexed/324089/324089_S12_R1_001.fastq.gz HsBam_polyA_whiteKD_00h_B
++ cut -f 2
++ tr ' ' '\t'
+ NAME=HsBam_polyA_whiteKD_00h_B
+ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/
+ [[ Y == N ]]
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/log.txt
++ awk '{ print $NF}'
++ grep reads_not_mapped
+ X=2800531
+ Xlist='reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760 3461786 2874507 1501653 3383539 4449209 2243936 1888651 3517176 2665608 2758401 2497406 2657827 1881759 4351133 2047821 2800531'
+ read LINE
+ echo reads_not_mapped 3620030 2498497 3250987 3178598 3503208 3089605 2558760 3461786 2874507 1501653 3383539 4449209 2243936 1888651 3517176 2665608 2758401 2497406 2657827 1881759 4351133 2047821 2800531
+ tr ' ' '\t'
+ for CATEGORY in annotation_counts splitup_mRNA splitup_TE
+ NAMES=
+ [[ annotation_counts != annotation_counts ]]
+ cut -f 2-
+ awk -v 'OFS=\t' '{
    X[$1]=X[$1]"\t"$2
    Y[$1]+=NR
  }
  END {
    for (i in X) {
      print Y[i],i,X[i]
    }
+ sort -k1,1n
  }' /dev/fd/63
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/HsBam_polyA_moonKD_42h_A_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/HsBam_polyA_moonKD_42h_B_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/HsBam_polyA_piwiKD_42h_A_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/HsBam_polyA_whiteKD_42h_A_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/HsBam_polyA_piwiKD_42h_B_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/HsBam_polyA_white_00h_E_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/HsBam_polyA_whiteKD_42h_B_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/OV_polyA_piwiKD_B_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/HsBam_polyA_piwiKD_00h_A_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/HsBam_piwiKD_68h_A_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/HsBam_polyA_moonKD_68h_A_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/HsBam_polyA_moonKD_00h_A_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/Ov_polyA_whiteKD_A_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/Ov_polyA_piwiKD_A_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/HsBam_polyA_piwiKD_00h_B_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/HsBam_piwiKD_68h_B_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/HsBam_polyA_moonKD_68h_B_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/HsBam_polyA_moonKD_00h_B_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/Ov_polyA_whiteKD_B_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/HsBam_polyA_whiteKD_68h_A_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/HsBam_polyA_whiteKD_00h_A_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/HsBam_polyA_whiteKD_68h_B_annotation_counts.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B HsBam_polyA_whiteKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/HsBam_polyA_whiteKD_00h_B_annotation_counts.txt
++ read NAME
+ [[ annotation_counts != annotation_counts ]]
+ EXT=
+ cat /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/TMP.txt
+ tr -s '\t'
+ tr ' ' '\t'
+ [[ RNAseq == CHIPseq ]]
+ [[ RNAseq == DNAseq ]]
+ [[ '' == Y ]]
+ for CATEGORY in annotation_counts splitup_mRNA splitup_TE
+ NAMES=
+ [[ splitup_mRNA != annotation_counts ]]
+ rm -rf /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/splitup_mRNA.txt
+ cut -f 2-
+ awk -v 'OFS=\t' '{
    X[$1]=X[$1]"\t"$2
    Y[$1]+=NR
  }
  END {
    for (i in X) {
      print Y[i],i,X[i]
    }
+ sort -k1,1n
++ read NAME
  }' /dev/fd/63
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/HsBam_polyA_moonKD_42h_A_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/HsBam_polyA_moonKD_42h_B_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/HsBam_polyA_piwiKD_42h_A_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/HsBam_polyA_whiteKD_42h_A_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/HsBam_polyA_piwiKD_42h_B_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/HsBam_polyA_white_00h_E_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/HsBam_polyA_whiteKD_42h_B_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/OV_polyA_piwiKD_B_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/HsBam_polyA_piwiKD_00h_A_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/HsBam_piwiKD_68h_A_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/HsBam_polyA_moonKD_68h_A_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/HsBam_polyA_moonKD_00h_A_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/Ov_polyA_whiteKD_A_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/Ov_polyA_piwiKD_A_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/HsBam_polyA_piwiKD_00h_B_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/HsBam_piwiKD_68h_B_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/HsBam_polyA_moonKD_68h_B_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/HsBam_polyA_moonKD_00h_B_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/Ov_polyA_whiteKD_B_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/HsBam_polyA_whiteKD_68h_A_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/HsBam_polyA_whiteKD_00h_A_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/HsBam_polyA_whiteKD_68h_B_splitup_mRNA.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B HsBam_polyA_whiteKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/HsBam_polyA_whiteKD_00h_B_splitup_mRNA.txt
++ read NAME
+ [[ splitup_mRNA != annotation_counts ]]
+ EXT=annotation_
+ cat /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/TMP.txt
+ tr ' ' '\t'
+ tr -s '\t'
+ [[ RNAseq == CHIPseq ]]
+ [[ RNAseq == DNAseq ]]
+ [[ '' == Y ]]
+ for CATEGORY in annotation_counts splitup_mRNA splitup_TE
+ NAMES=
+ [[ splitup_TE != annotation_counts ]]
+ rm -rf /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/annotation_splitup_TE.txt
+ cut -f 2-
+ awk -v 'OFS=\t' '{
    X[$1]=X[$1]"\t"$2
    Y[$1]+=NR
  }
  END {
    for (i in X) {
      print Y[i],i,X[i]
    }
+ sort -k1,1n
++ read NAME
  }' /dev/fd/63
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/HsBam_polyA_moonKD_42h_A_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/HsBam_polyA_moonKD_42h_B_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/HsBam_polyA_piwiKD_42h_A_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/HsBam_polyA_whiteKD_42h_A_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/HsBam_polyA_piwiKD_42h_B_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/HsBam_polyA_white_00h_E_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/HsBam_polyA_whiteKD_42h_B_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/OV_polyA_piwiKD_B_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/HsBam_polyA_piwiKD_00h_A_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/HsBam_piwiKD_68h_A_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/HsBam_polyA_moonKD_68h_A_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/HsBam_polyA_moonKD_00h_A_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/Ov_polyA_whiteKD_A_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/Ov_polyA_piwiKD_A_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/HsBam_polyA_piwiKD_00h_B_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/HsBam_piwiKD_68h_B_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/HsBam_polyA_moonKD_68h_B_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/HsBam_polyA_moonKD_00h_B_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/Ov_polyA_whiteKD_B_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/HsBam_polyA_whiteKD_68h_A_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/HsBam_polyA_whiteKD_00h_A_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/HsBam_polyA_whiteKD_68h_B_splitup_TE.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B HsBam_polyA_whiteKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/HsBam_polyA_whiteKD_00h_B_splitup_TE.txt
++ read NAME
+ [[ splitup_TE != annotation_counts ]]
+ EXT=annotation_
+ cat /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/TMP.txt
+ tr -s '\t'
+ tr ' ' '\t'
+ [[ RNAseq == CHIPseq ]]
+ [[ RNAseq == DNAseq ]]
+ [[ '' == Y ]]
+ Rscript /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/script-files/plot_annotations.R TMP=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/ OUTdir=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/plots/ FILE=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/annotation_counts.txt PLOTdir=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/plots/
+ singularity exec --cleanenv -B /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/:/tmp /home/my/AP_singu/R.simg Rscript /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/script-files/plot_annotations.R TMP=/faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/ OUTdir=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/plots/ FILE=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/annotation_counts.txt PLOTdir=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/plots/

Attaching package: ‘plotly’

The following objects are masked from ‘package:plyr’:

    arrange, mutate, rename, summarise

The following object is masked from ‘package:ggplot2’:

    last_plot

The following object is masked from ‘package:stats’:

    filter

The following object is masked from ‘package:graphics’:

    layout

Using annotation as id variables
Using annotation as id variables
+ [[ N == Y ]]
+ [[ dm6 == dm6 ]]
+ mkdir /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/1kb_tiles
+ for STRAND in Plus Minus
+ cut -f 3-
+ awk -v 'OFS=\t' '
    {
      if($2==-1){$2=0}

      X[$1]=X[$1]"\t"$2
      Y[$1]+=NR
    }
    END {
      for (i in X) {
        print Y[i],i,X[i]
      }
+ sort -k1,1n
++ read NAME
    }' /dev/fd/63
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/WindowCounts_Plus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B HsBam_polyA_whiteKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/WindowCounts_Plus.txt
++ read NAME
+ echo HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B HsBam_polyA_whiteKD_00h_B
+ tr -s '\t'
+ tr ' ' '\t'
+ cat /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/TMP.txt
+ tr -s '\t'
+ tr ' ' '\t'
+ for STRAND in Plus Minus
+ cut -f 3-
+ awk -v 'OFS=\t' '
    {
      if($2==-1){$2=0}

      X[$1]=X[$1]"\t"$2
      Y[$1]+=NR
    }
    END {
      for (i in X) {
        print Y[i],i,X[i]
      }
+ sort -k1,1n
++ read NAME
    }' /dev/fd/63
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/WindowCounts_Minus.txt
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B HsBam_polyA_whiteKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/WindowCounts_Minus.txt
++ read NAME
+ echo HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B HsBam_polyA_whiteKD_00h_B
+ tr -s '\t'
+ tr ' ' '\t'
+ cat /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/TMP.txt
+ tr -s '\t'
+ tr ' ' '\t'
+ echo HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B HsBam_polyA_whiteKD_00h_B
+ tr ' ' '\t'
+ cp /faststorage/project/PAN_illumina/backup/scripts/AnnotationPipeline/utility-files//dmel/dm6/1kb_tile/kbWindows_mainchr_genes_tss_dm6.txt /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/1kb_tiles/
+ rawFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/plots/raw-data/
+ mkdir -p /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/plots/raw-data/
+ [[ RNAseq == sRNAseq ]]
+ [[ RNAseq == CLIPseq ]]
+ [[ RNAseq == sRNAseqIP ]]
+ [[ RNAseq == SLAMseq ]]
+ [[ RNAseq == GROseq ]]
+ [[ RNAseq == sRNAseq ]]
+ [[ RNAseq == sRNAseqIP ]]
+ [[ RNAseq == CLIPseq ]]
+ [[ RNAseq = RNAseq ]]
+ CATEGORIES='TE_GeTMM TE_GeTMM GeTMM_gene'
+ [[ RNAseq == sRNAseq ]]
+ [[ RNAseq == sRNAseqIP ]]
+ [[ RNAseq == CLIPseq ]]
+ [[ RNAseq = RNAseq ]]
+ for CATEGORY in $CATEGORIES
+ [[ TE_GeTMM == *\T\E\_\G\e\T\M\M* ]]
+ head -n 1 /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/gene-expression/GeTMM_normalized.txt
+ tr ' ' '\t'
+ grep '^TE:' /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/gene-expression/GeTMM_normalized.txt
+ grep -v _AS
+ tr ' ' '\t'
+ head -n 1 /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/gene-expression/GeTMM_normalized.txt
+ tr ' ' '\t'
+ grep '^TE:' /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/gene-expression/GeTMM_normalized.txt
+ tr ' ' '\t'
+ grep _AS
+ for CATEGORY in $CATEGORIES
+ [[ TE_GeTMM == *\T\E\_\G\e\T\M\M* ]]
+ head -n 1 /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/gene-expression/GeTMM_normalized.txt
+ tr ' ' '\t'
+ grep '^TE:' /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/gene-expression/GeTMM_normalized.txt
+ tr ' ' '\t'
+ grep -v _AS
+ head -n 1 /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/gene-expression/GeTMM_normalized.txt
+ tr ' ' '\t'
+ grep '^TE:' /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/gene-expression/GeTMM_normalized.txt
+ grep _AS
+ tr ' ' '\t'
+ for CATEGORY in $CATEGORIES
+ [[ GeTMM_gene == *\T\E\_\G\e\T\M\M* ]]
+ [[ GeTMM_gene == GeTMM_gene ]]
+ head -n 1 /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/gene-expression/GeTMM_normalized.txt
+ tr ' ' '\t'
+ grep -v '^TE:' /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/gene-expression/GeTMM_normalized.txt
+ tr ' ' '\t'
+ [[ N == Y ]]
+ [[ RNAseq == CHIPseq ]]
+ [[ RNAseq == DNAseq ]]
+ [[ '' == Y ]]
+ CATEGORIES='sense antisense'
+ for CATEGORY in $CATEGORIES
+ NAMES=
+ sort -k2,2n
+ awk -v 'OFS=\t' '{
        
        NAME=$1"~"$2
        if(NAME in X) {
          X[NAME]=X[NAME]"\t"$3
        }else{
          X[NAME]=$3
        }
      }
      END {
        for (i in X) {
          print i,X[i]
        }
      }' /dev/fd/63
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/HsBam_polyA_moonKD_42h_A_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/HsBam_polyA_moonKD_42h_B_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/HsBam_polyA_piwiKD_42h_A_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/HsBam_polyA_whiteKD_42h_A_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/HsBam_polyA_piwiKD_42h_B_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/HsBam_polyA_white_00h_E_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/HsBam_polyA_whiteKD_42h_B_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/OV_polyA_piwiKD_B_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/HsBam_polyA_piwiKD_00h_A_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/HsBam_piwiKD_68h_A_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/HsBam_polyA_moonKD_68h_A_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/HsBam_polyA_moonKD_00h_A_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/Ov_polyA_whiteKD_A_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/Ov_polyA_piwiKD_A_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/HsBam_polyA_piwiKD_00h_B_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/HsBam_piwiKD_68h_B_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/HsBam_polyA_moonKD_68h_B_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/HsBam_polyA_moonKD_00h_B_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/Ov_polyA_whiteKD_B_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/HsBam_polyA_whiteKD_68h_A_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/HsBam_polyA_whiteKD_00h_A_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/HsBam_polyA_whiteKD_68h_B_TE-sense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B HsBam_polyA_whiteKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/HsBam_polyA_whiteKD_00h_B_TE-sense_man.bg
++ read NAME
++ echo TE POS HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B HsBam_polyA_whiteKD_00h_B
++ tr '~' '\t'
++ tr ' ' '\t'
+ echo /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/
+ cat /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/TMP_TEhist.txt
+ sort -k2,2n
+ tr '~' '\t'
+ tr ' ' '\t'
+ for CATEGORY in $CATEGORIES
+ NAMES=
+ sort -k2,2n
+ awk -v 'OFS=\t' '{
        
        NAME=$1"~"$2
        if(NAME in X) {
          X[NAME]=X[NAME]"\t"$3
        }else{
          X[NAME]=$3
        }
      }
      END {
        for (i in X) {
          print i,X[i]
        }
++ read NAME
      }' /dev/fd/63
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_A/HsBam_polyA_moonKD_42h_A_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_42h_B/HsBam_polyA_moonKD_42h_B_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_A/HsBam_polyA_piwiKD_42h_A_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_A/HsBam_polyA_whiteKD_42h_A_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_42h_B/HsBam_polyA_piwiKD_42h_B_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_white_00h_E/HsBam_polyA_white_00h_E_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_42h_B/HsBam_polyA_whiteKD_42h_B_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/OV_polyA_piwiKD_B/OV_polyA_piwiKD_B_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_A/HsBam_polyA_piwiKD_00h_A_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_A/HsBam_piwiKD_68h_A_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_A/HsBam_polyA_moonKD_68h_A_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_A/HsBam_polyA_moonKD_00h_A_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_A/Ov_polyA_whiteKD_A_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_piwiKD_A/Ov_polyA_piwiKD_A_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_piwiKD_00h_B/HsBam_polyA_piwiKD_00h_B_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_piwiKD_68h_B/HsBam_piwiKD_68h_B_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_68h_B/HsBam_polyA_moonKD_68h_B_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_moonKD_00h_B/HsBam_polyA_moonKD_00h_B_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/Ov_polyA_whiteKD_B/Ov_polyA_whiteKD_B_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_A/HsBam_polyA_whiteKD_68h_A_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_A/HsBam_polyA_whiteKD_00h_A_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_68h_B/HsBam_polyA_whiteKD_68h_B_TE-antisense_man.bg
++ read NAME
++ libFOLDER=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/
++ NAMES=' HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B HsBam_polyA_whiteKD_00h_B'
++ cat /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp//individual-libraries/HsBam_polyA_whiteKD_00h_B/HsBam_polyA_whiteKD_00h_B_TE-antisense_man.bg
++ read NAME
++ echo TE POS HsBam_polyA_moonKD_42h_A HsBam_polyA_moonKD_42h_B HsBam_polyA_piwiKD_42h_A HsBam_polyA_whiteKD_42h_A HsBam_polyA_piwiKD_42h_B HsBam_polyA_white_00h_E HsBam_polyA_whiteKD_42h_B OV_polyA_piwiKD_B HsBam_polyA_piwiKD_00h_A HsBam_piwiKD_68h_A HsBam_polyA_moonKD_68h_A HsBam_polyA_moonKD_00h_A Ov_polyA_whiteKD_A Ov_polyA_piwiKD_A HsBam_polyA_piwiKD_00h_B HsBam_piwiKD_68h_B HsBam_polyA_moonKD_68h_B HsBam_polyA_moonKD_00h_B Ov_polyA_whiteKD_B HsBam_polyA_whiteKD_68h_A HsBam_polyA_whiteKD_00h_A HsBam_polyA_whiteKD_68h_B HsBam_polyA_whiteKD_00h_B
++ tr '~' '\t'
++ tr ' ' '\t'
+ echo /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/
+ cat /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/TMP_TEhist.txt
+ tr ' ' '\t'
+ sort -k2,2n
+ tr '~' '\t'
+ mkdir -p /faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/plots/TEhist/
+ Rscript /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/script-files/plot_TEhist.R OPENdir=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/plots/TEhist/ inSENSE=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/plots/raw-data/TE_hist_sense.txt inANTISENSE=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/plots/raw-data/TE_hist_antisense.txt inALL=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/plots/raw-data/TE_hist_all.txt TYPE=RNAseq
+ singularity exec --cleanenv -B /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/:/tmp /home/my/AP_singu/R.simg Rscript /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/script-files/plot_TEhist.R OPENdir=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/plots/TEhist/ inSENSE=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/plots/raw-data/TE_hist_sense.txt inANTISENSE=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/plots/raw-data/TE_hist_antisense.txt inALL=/faststorage/project/PAN_illumina/results//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/plots/raw-data/TE_hist_all.txt TYPE=RNAseq
── Attaching packages ─────────────────────────────────────── tidyverse 1.3.1 ──
✔ ggplot2 3.3.4.9000     ✔ purrr   0.3.4     
✔ tibble  3.1.2          ✔ dplyr   1.0.7     
✔ tidyr   1.1.3          ✔ stringr 1.4.0     
✔ readr   1.4.0          ✔ forcats 0.5.1     
── Conflicts ────────────────────────────────────────── tidyverse_conflicts() ──
✖ dplyr::filter() masks stats::filter()
✖ dplyr::lag()    masks stats::lag()

Attaching package: ‘plotly’

The following object is masked from ‘package:ggplot2’:

    last_plot

The following object is masked from ‘package:stats’:

    filter

The following object is masked from ‘package:graphics’:

    layout

+ rm -rf /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/Rscripts.pdf
+ [[ N != Y ]]
+ rm -rf /faststorage/project/PAN_illumina/tmp//my/dm6/RNAseq/2025-01-27-RNAseq_Thomas_PolyA_fullexp/TMP/
++ awk '{ print ($1-$2)/60 }'
+++ date +%s
++ echo -e 1738017433 1738015534
+ PROCESSED_TIME=31.65
+ echo 'collect-numbers - processing_time=' 31.65
+ exit