cn-1044
USER_NAME=thomasgrnbk
TYPE=RNAseq
SLAM=N
BASE_FOLDER=/faststorage/project/PAN_illumina/results/
FOLDER=/faststorage/project/PAN_illumina/results//thomasgrnbk/dm6/RNAseq/2025-10-17-MTD_vs_TOsK_vs_bamTOsK/
FOLDER_NAME=MTD_vs_TOsK_vs_bamTOsK
RUNname=2025-10-17-MTD_vs_TOsK_vs_bamTOsK
TMPdir=/faststorage/project/PAN_illumina/tmp//thomasgrnbk/dm6/RNAseq/2025-10-17-MTD_vs_TOsK_vs_bamTOsK/
LIB_STORAGE_FOLDER=/faststorage/project/PAN_illumina/data/libSTORAGE/
SINGULARITYdir=/home/thomasgrnbk/AP_singu/
downDIR=/faststorage/project/PAN_illumina/tmp//NGS_downloads/
DEBUG=N
VERSION=r6.63
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=3
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//thomasgrnbk/dm6/RNAseq/2025-10-17-MTD_vs_TOsK_vs_bamTOsK/script-files/
BASE_UTILITY_LOCATION=/faststorage/project/PAN_illumina/utilities/AnnotationPipeline/
UTILITY_LOCATION=/faststorage/project/PAN_illumina/utilities/AnnotationPipeline/dmel/dm6/
RELEASE=
VERSION=r6.63
UTILITY_DIR=/faststorage/project/PAN_illumina/backup/scripts/AnnotationPipeline/utility-files/
nFILES=18
FILE_CONTAINING_LIBRARIES=/faststorage/project/PAN_illumina/tmp//thomasgrnbk/dm6/RNAseq/2025-10-17-MTD_vs_TOsK_vs_bamTOsK/files.txt
FOLDER_NAME=MTD_vs_TOsK_vs_bamTOsK
GENOME_VERSION=dm6
subCOLOR=0~128~0
FORCE=
SYSTEM=EXTERN
LOGs=/faststorage/project/PAN_illumina/results//thomasgrnbk/dm6/RNAseq/2025-10-17-MTD_vs_TOsK_vs_bamTOsK/LOGs/
prepareREF=no
nSPLITS=1000000
SE=N
SE2nd=
maxCOUNT=1000000
demuxFASTA=N
autoViewLimits=
only5end=
PingPong=
DGE=Y
GEO=
noSTRANDED=
FORCEimport=
exportBAM=N
exportBAMuncollapsed=N
RATIOtracks=N
GENOMEdir=/faststorage/project/PAN_illumina/results//thomasgrnbk/dm6/
newCOLLECTION=N
prepANNOTATIONgff=
prepGENOMEfasta=
prepTRANSCRIPTOMEfasta=
prepCDSfasta=
prepNCRNAfasta=
refGENO=ToSK_white
GENO=BamTosK_white~BamTosK_piwi~MTD_piwi~MTD_white~ToSK_piwi~ToSK_white
Nexec=1
2
[1] "argmat"  "args"    "DGE"     "FOLDER"  "GENO"    "i"       "Nexec"  
[8] "refGENO" "TMP"    
 [1] 0.9968084 0.9923190 1.0618465 0.9562980 0.9471069 1.0152768 1.0475060
 [8] 1.0442195 1.0850669 1.0247044 0.9032140 0.9133861 0.9905972 0.9716032
[15] 0.9772328 1.0971500
[1] "BamTosK_white" "BamTosK_piwi" 
[1] "BamTosK_white" "MTD_piwi"     
[1] "BamTosK_white" "MTD_white"    
[1] "BamTosK_white" "ToSK_piwi"    
[1] "BamTosK_white" "ToSK_white"   
[1] "BamTosK_piwi" "MTD_piwi"    
[1] "BamTosK_piwi" "MTD_white"   
[1] "BamTosK_piwi" "ToSK_piwi"   
[1] "BamTosK_piwi" "ToSK_white"  
[1] "MTD_piwi"  "MTD_white"
[1] "MTD_piwi"  "ToSK_piwi"
[1] "MTD_piwi"   "ToSK_white"
[1] "MTD_white" "ToSK_piwi"
[1] "MTD_white"  "ToSK_white"
[1] "ToSK_piwi"  "ToSK_white"
2.91667