Job ID = 5791359 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 34,944,272 reads read : 69,888,544 reads written : 69,888,544 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: 00:10:17 34944272 reads; of these: 34944272 (100.00%) were paired; of these: 16459981 (47.10%) aligned concordantly 0 times 16447748 (47.07%) aligned concordantly exactly 1 time 2036543 (5.83%) aligned concordantly >1 times ---- 16459981 pairs aligned concordantly 0 times; of these: 28400 (0.17%) aligned discordantly 1 time ---- 16431581 pairs aligned 0 times concordantly or discordantly; of these: 32863162 mates make up the pairs; of these: 32584932 (99.15%) aligned 0 times 234425 (0.71%) aligned exactly 1 time 43805 (0.13%) aligned >1 times 53.38% overall alignment rate Time searching: 00:10:17 Overall time: 00:10:17 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 16 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] 5255602 / 18494571 = 0.2842 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 10:05:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.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 10:05:01: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:05:01: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:05:06: 1000000 INFO @ Wed, 22 Apr 2020 10:05:11: 2000000 INFO @ Wed, 22 Apr 2020 10:05:16: 3000000 INFO @ Wed, 22 Apr 2020 10:05:21: 4000000 INFO @ Wed, 22 Apr 2020 10:05:26: 5000000 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 10:05:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.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 10:05:30: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:05:30: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:05:31: 6000000 INFO @ Wed, 22 Apr 2020 10:05:35: 1000000 INFO @ Wed, 22 Apr 2020 10:05:36: 7000000 INFO @ Wed, 22 Apr 2020 10:05:41: 2000000 INFO @ Wed, 22 Apr 2020 10:05:41: 8000000 INFO @ Wed, 22 Apr 2020 10:05:46: 3000000 INFO @ Wed, 22 Apr 2020 10:05:46: 9000000 INFO @ Wed, 22 Apr 2020 10:05:51: 4000000 INFO @ Wed, 22 Apr 2020 10:05:51: 10000000 INFO @ Wed, 22 Apr 2020 10:05:56: 5000000 INFO @ Wed, 22 Apr 2020 10:05:56: 11000000 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 Apr 2020 10:06:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.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 10:06:00: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:06:00: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:06:01: 6000000 INFO @ Wed, 22 Apr 2020 10:06:02: 12000000 INFO @ Wed, 22 Apr 2020 10:06:06: 1000000 INFO @ Wed, 22 Apr 2020 10:06:07: 13000000 INFO @ Wed, 22 Apr 2020 10:06:07: 7000000 INFO @ Wed, 22 Apr 2020 10:06:11: 2000000 INFO @ Wed, 22 Apr 2020 10:06:12: 14000000 INFO @ Wed, 22 Apr 2020 10:06:12: 8000000 INFO @ Wed, 22 Apr 2020 10:06:16: 3000000 INFO @ Wed, 22 Apr 2020 10:06:17: 15000000 INFO @ Wed, 22 Apr 2020 10:06:17: 9000000 INFO @ Wed, 22 Apr 2020 10:06:22: 4000000 INFO @ Wed, 22 Apr 2020 10:06:22: 16000000 INFO @ Wed, 22 Apr 2020 10:06:22: 10000000 INFO @ Wed, 22 Apr 2020 10:06:27: 17000000 INFO @ Wed, 22 Apr 2020 10:06:27: 5000000 INFO @ Wed, 22 Apr 2020 10:06:27: 11000000 INFO @ Wed, 22 Apr 2020 10:06:32: 18000000 INFO @ Wed, 22 Apr 2020 10:06:32: 6000000 INFO @ Wed, 22 Apr 2020 10:06:32: 12000000 INFO @ Wed, 22 Apr 2020 10:06:37: 19000000 INFO @ Wed, 22 Apr 2020 10:06:37: 13000000 INFO @ Wed, 22 Apr 2020 10:06:37: 7000000 INFO @ Wed, 22 Apr 2020 10:06:42: 20000000 INFO @ Wed, 22 Apr 2020 10:06:42: 8000000 INFO @ Wed, 22 Apr 2020 10:06:43: 14000000 INFO @ Wed, 22 Apr 2020 10:06:47: 21000000 INFO @ Wed, 22 Apr 2020 10:06:47: 9000000 INFO @ Wed, 22 Apr 2020 10:06:48: 15000000 INFO @ Wed, 22 Apr 2020 10:06:52: 22000000 INFO @ Wed, 22 Apr 2020 10:06:53: 10000000 INFO @ Wed, 22 Apr 2020 10:06:53: 16000000 INFO @ Wed, 22 Apr 2020 10:06:57: 23000000 INFO @ Wed, 22 Apr 2020 10:06:58: 17000000 INFO @ Wed, 22 Apr 2020 10:06:58: 11000000 INFO @ Wed, 22 Apr 2020 10:07:02: 24000000 INFO @ Wed, 22 Apr 2020 10:07:03: 18000000 INFO @ Wed, 22 Apr 2020 10:07:03: 12000000 INFO @ Wed, 22 Apr 2020 10:07:07: 25000000 INFO @ Wed, 22 Apr 2020 10:07:08: 19000000 INFO @ Wed, 22 Apr 2020 10:07:08: 13000000 INFO @ Wed, 22 Apr 2020 10:07:12: 26000000 INFO @ Wed, 22 Apr 2020 10:07:13: 20000000 INFO @ Wed, 22 Apr 2020 10:07:13: 14000000 INFO @ Wed, 22 Apr 2020 10:07:16: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:07:16: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:07:16: #1 total tags in treatment: 13232525 INFO @ Wed, 22 Apr 2020 10:07:16: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:07:16: #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 10:07:17: #1 tags after filtering in treatment: 9441693 INFO @ Wed, 22 Apr 2020 10:07:17: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 22 Apr 2020 10:07:17: #1 finished! INFO @ Wed, 22 Apr 2020 10:07:17: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:07:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:07:17: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:07:17: Too few paired peaks (0) 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 10:07:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.05_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/SRX7409570/SRX7409570.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:07:18: 21000000 INFO @ Wed, 22 Apr 2020 10:07:18: 15000000 INFO @ Wed, 22 Apr 2020 10:07:23: 22000000 INFO @ Wed, 22 Apr 2020 10:07:23: 16000000 INFO @ Wed, 22 Apr 2020 10:07:28: 23000000 INFO @ Wed, 22 Apr 2020 10:07:28: 17000000 INFO @ Wed, 22 Apr 2020 10:07:33: 24000000 INFO @ Wed, 22 Apr 2020 10:07:33: 18000000 INFO @ Wed, 22 Apr 2020 10:07:38: 25000000 INFO @ Wed, 22 Apr 2020 10:07:38: 19000000 INFO @ Wed, 22 Apr 2020 10:07:43: 26000000 INFO @ Wed, 22 Apr 2020 10:07:43: 20000000 INFO @ Wed, 22 Apr 2020 10:07:47: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:07:47: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:07:47: #1 total tags in treatment: 13232525 INFO @ Wed, 22 Apr 2020 10:07:47: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:07:47: #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 10:07:48: #1 tags after filtering in treatment: 9441693 INFO @ Wed, 22 Apr 2020 10:07:48: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 22 Apr 2020 10:07:48: #1 finished! INFO @ Wed, 22 Apr 2020 10:07:48: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:07:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:07:48: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:07:48: Too few paired peaks (0) 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 10:07:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.10_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/SRX7409570/SRX7409570.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:07:48: 21000000 INFO @ Wed, 22 Apr 2020 10:07:53: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:07:58: 23000000 INFO @ Wed, 22 Apr 2020 10:08:03: 24000000 INFO @ Wed, 22 Apr 2020 10:08:08: 25000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:08:13: 26000000 INFO @ Wed, 22 Apr 2020 10:08:17: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:08:17: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:08:17: #1 total tags in treatment: 13232525 INFO @ Wed, 22 Apr 2020 10:08:17: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:08:17: #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 10:08:17: #1 tags after filtering in treatment: 9441693 INFO @ Wed, 22 Apr 2020 10:08:17: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 22 Apr 2020 10:08:17: #1 finished! INFO @ Wed, 22 Apr 2020 10:08:17: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:08:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:08:18: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:08:18: Too few paired peaks (0) 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 10:08:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.20_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/SRX7409570/SRX7409570.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409570/SRX7409570.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling