Job ID = 5791055 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 124,157 reads read : 248,314 reads written : 248,314 rm: cannot remove ‘[DSE]RR*’: 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: 00:00:02 124157 reads; of these: 124157 (100.00%) were paired; of these: 53991 (43.49%) aligned concordantly 0 times 50263 (40.48%) aligned concordantly exactly 1 time 19903 (16.03%) aligned concordantly >1 times ---- 53991 pairs aligned concordantly 0 times; of these: 859 (1.59%) aligned discordantly 1 time ---- 53132 pairs aligned 0 times concordantly or discordantly; of these: 106264 mates make up the pairs; of these: 91440 (86.05%) aligned 0 times 9762 (9.19%) aligned exactly 1 time 5062 (4.76%) aligned >1 times 63.18% overall alignment rate Time searching: 00:00:02 Overall time: 00:00:02 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] 6686 / 70799 = 0.0944 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 08:21:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.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 08:21:01: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:21:01: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:21:02: #1 tag size is determined as 38 bps INFO @ Wed, 22 Apr 2020 08:21:02: #1 tag size = 38 INFO @ Wed, 22 Apr 2020 08:21:02: #1 total tags in treatment: 63589 INFO @ Wed, 22 Apr 2020 08:21:02: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:21:02: #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 08:21:02: #1 tags after filtering in treatment: 59463 INFO @ Wed, 22 Apr 2020 08:21:02: #1 Redundant rate of treatment: 0.06 INFO @ Wed, 22 Apr 2020 08:21:02: #1 finished! INFO @ Wed, 22 Apr 2020 08:21:02: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:21:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:21:02: #2 number of paired peaks: 6 WARNING @ Wed, 22 Apr 2020 08:21:02: Too few paired peaks (6) 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 08:21:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.05_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/SRX5883279/SRX5883279.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.05_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 08:21:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.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 08:21:31: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:21:31: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:21:32: #1 tag size is determined as 38 bps INFO @ Wed, 22 Apr 2020 08:21:32: #1 tag size = 38 INFO @ Wed, 22 Apr 2020 08:21:32: #1 total tags in treatment: 63589 INFO @ Wed, 22 Apr 2020 08:21:32: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:21:32: #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 08:21:32: #1 tags after filtering in treatment: 59463 INFO @ Wed, 22 Apr 2020 08:21:32: #1 Redundant rate of treatment: 0.06 INFO @ Wed, 22 Apr 2020 08:21:32: #1 finished! INFO @ Wed, 22 Apr 2020 08:21:32: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:21:32: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:21:32: #2 number of paired peaks: 6 WARNING @ Wed, 22 Apr 2020 08:21:32: Too few paired peaks (6) 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 08:21:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.10_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/SRX5883279/SRX5883279.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.10_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 08:22:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.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 08:22:01: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:22:01: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:22:02: #1 tag size is determined as 38 bps INFO @ Wed, 22 Apr 2020 08:22:02: #1 tag size = 38 INFO @ Wed, 22 Apr 2020 08:22:02: #1 total tags in treatment: 63589 INFO @ Wed, 22 Apr 2020 08:22:02: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:22:02: #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 08:22:02: #1 tags after filtering in treatment: 59463 INFO @ Wed, 22 Apr 2020 08:22:02: #1 Redundant rate of treatment: 0.06 INFO @ Wed, 22 Apr 2020 08:22:02: #1 finished! INFO @ Wed, 22 Apr 2020 08:22:02: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:22:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:22:02: #2 number of paired peaks: 6 WARNING @ Wed, 22 Apr 2020 08:22:02: Too few paired peaks (6) 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 08:22:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.20_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/SRX5883279/SRX5883279.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883279/SRX5883279.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling