Job ID = 7108969 SRX = SRX8036498 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 11964652 spots for SRR11458945/SRR11458945.sra Written 11964652 spots for SRR11458945/SRR11458945.sra 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: 00:05:53 11964652 reads; of these: 11964652 (100.00%) were paired; of these: 8124452 (67.90%) aligned concordantly 0 times 3247688 (27.14%) aligned concordantly exactly 1 time 592512 (4.95%) aligned concordantly >1 times ---- 8124452 pairs aligned concordantly 0 times; of these: 12586 (0.15%) aligned discordantly 1 time ---- 8111866 pairs aligned 0 times concordantly or discordantly; of these: 16223732 mates make up the pairs; of these: 16196032 (99.83%) aligned 0 times 16985 (0.10%) aligned exactly 1 time 10715 (0.07%) aligned >1 times 32.32% overall alignment rate Time searching: 00:05:53 Overall time: 00:05:53 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_sort_core] merging from 8 files... [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] 676340 / 3851342 = 0.1756 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 Jul 2020 13:51:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.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 Jul 2020 13:51:52: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:51:52: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:52:01: 1000000 INFO @ Wed, 22 Jul 2020 13:52:09: 2000000 INFO @ Wed, 22 Jul 2020 13:52:17: 3000000 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 Jul 2020 13:52:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.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 Jul 2020 13:52:22: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:52:22: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:52:26: 4000000 INFO @ Wed, 22 Jul 2020 13:52:33: 1000000 INFO @ Wed, 22 Jul 2020 13:52:36: 5000000 INFO @ Wed, 22 Jul 2020 13:52:44: 2000000 INFO @ Wed, 22 Jul 2020 13:52:45: 6000000 INFO @ Wed, 22 Jul 2020 13:52:49: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:52:49: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:52:49: #1 total tags in treatment: 3165041 INFO @ Wed, 22 Jul 2020 13:52:49: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:52:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:52:49: #1 tags after filtering in treatment: 2647615 INFO @ Wed, 22 Jul 2020 13:52:49: #1 Redundant rate of treatment: 0.16 INFO @ Wed, 22 Jul 2020 13:52:49: #1 finished! INFO @ Wed, 22 Jul 2020 13:52:49: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:52:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:52:49: #2 number of paired peaks: 54 WARNING @ Wed, 22 Jul 2020 13:52:49: Too few paired peaks (54) 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 Jul 2020 13:52:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.05_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/SRX8036498/SRX8036498.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.05_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 INFO @ Wed, 22 Jul 2020 13:52:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.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 Jul 2020 13:52:52: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:52:52: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:52:55: 3000000 INFO @ Wed, 22 Jul 2020 13:53:02: 1000000 INFO @ Wed, 22 Jul 2020 13:53:06: 4000000 INFO @ Wed, 22 Jul 2020 13:53:11: 2000000 INFO @ Wed, 22 Jul 2020 13:53:16: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 13:53:21: 3000000 INFO @ Wed, 22 Jul 2020 13:53:27: 6000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 13:53:31: 4000000 INFO @ Wed, 22 Jul 2020 13:53:31: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:53:31: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:53:31: #1 total tags in treatment: 3165041 INFO @ Wed, 22 Jul 2020 13:53:31: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:53:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:53:31: #1 tags after filtering in treatment: 2647615 INFO @ Wed, 22 Jul 2020 13:53:31: #1 Redundant rate of treatment: 0.16 INFO @ Wed, 22 Jul 2020 13:53:31: #1 finished! INFO @ Wed, 22 Jul 2020 13:53:31: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:53:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:53:31: #2 number of paired peaks: 54 WARNING @ Wed, 22 Jul 2020 13:53:31: Too few paired peaks (54) 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 Jul 2020 13:53:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.10_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/SRX8036498/SRX8036498.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:53:39: 5000000 INFO @ Wed, 22 Jul 2020 13:53:48: 6000000 INFO @ Wed, 22 Jul 2020 13:53:51: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:53:51: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:53:51: #1 total tags in treatment: 3165041 INFO @ Wed, 22 Jul 2020 13:53:51: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:53:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:53:51: #1 tags after filtering in treatment: 2647615 INFO @ Wed, 22 Jul 2020 13:53:51: #1 Redundant rate of treatment: 0.16 INFO @ Wed, 22 Jul 2020 13:53:51: #1 finished! INFO @ Wed, 22 Jul 2020 13:53:51: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:53:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:53:52: #2 number of paired peaks: 54 WARNING @ Wed, 22 Jul 2020 13:53:52: Too few paired peaks (54) 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 Jul 2020 13:53:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.20_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/SRX8036498/SRX8036498.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036498/SRX8036498.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling