Job ID = 5791070 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 3,149 reads read : 6,298 reads written : 6,298 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR9108799.sra.cache’: No such file or directory fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:00:00 3149 reads; of these: 3149 (100.00%) were paired; of these: 1509 (47.92%) aligned concordantly 0 times 1424 (45.22%) aligned concordantly exactly 1 time 216 (6.86%) aligned concordantly >1 times ---- 1509 pairs aligned concordantly 0 times; of these: 71 (4.71%) aligned discordantly 1 time ---- 1438 pairs aligned 0 times concordantly or discordantly; of these: 2876 mates make up the pairs; of these: 2407 (83.69%) aligned 0 times 367 (12.76%) aligned exactly 1 time 102 (3.55%) aligned >1 times 61.78% overall alignment rate Time searching: 00:00:00 Overall time: 00:00:00 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 21 / 1695 = 0.0124 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Apr 2020 08:25:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Apr 2020 08:25:03: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:25:03: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:25:03: #1 tag size is determined as 38 bps INFO @ Wed, 22 Apr 2020 08:25:03: #1 tag size = 38 INFO @ Wed, 22 Apr 2020 08:25:03: #1 total tags in treatment: 1622 INFO @ Wed, 22 Apr 2020 08:25:03: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:25:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:25:03: #1 tags after filtering in treatment: 1616 INFO @ Wed, 22 Apr 2020 08:25:03: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Apr 2020 08:25:03: #1 finished! INFO @ Wed, 22 Apr 2020 08:25:03: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:25:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:25:03: #2 number of paired peaks: 38 WARNING @ Wed, 22 Apr 2020 08:25:03: Too few paired peaks (38) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Apr 2020 08:25:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Apr 2020 08:25:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Apr 2020 08:25:33: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:25:33: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:25:33: #1 tag size is determined as 38 bps INFO @ Wed, 22 Apr 2020 08:25:33: #1 tag size = 38 INFO @ Wed, 22 Apr 2020 08:25:33: #1 total tags in treatment: 1622 INFO @ Wed, 22 Apr 2020 08:25:33: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:25:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:25:33: #1 tags after filtering in treatment: 1616 INFO @ Wed, 22 Apr 2020 08:25:33: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Apr 2020 08:25:33: #1 finished! INFO @ Wed, 22 Apr 2020 08:25:33: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:25:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:25:33: #2 number of paired peaks: 38 WARNING @ Wed, 22 Apr 2020 08:25:33: Too few paired peaks (38) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Apr 2020 08:25:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 08:26:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Apr 2020 08:26:03: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:26:03: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:26:03: #1 tag size is determined as 38 bps INFO @ Wed, 22 Apr 2020 08:26:03: #1 tag size = 38 INFO @ Wed, 22 Apr 2020 08:26:03: #1 total tags in treatment: 1622 INFO @ Wed, 22 Apr 2020 08:26:03: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:26:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:26:03: #1 tags after filtering in treatment: 1616 INFO @ Wed, 22 Apr 2020 08:26:03: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Apr 2020 08:26:03: #1 finished! INFO @ Wed, 22 Apr 2020 08:26:03: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:26:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:26:03: #2 number of paired peaks: 38 WARNING @ Wed, 22 Apr 2020 08:26:03: Too few paired peaks (38) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Apr 2020 08:26:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883293/SRX5883293.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling