Job ID = 14520619 SRX = SRX11781085 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:27:32 prefetch.2.10.7: 1) Downloading 'SRR15481028'... 2022-01-15T10:27:32 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:31:34 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:31:34 prefetch.2.10.7: 1) 'SRR15481028' was downloaded successfully 2022-01-15T10:31:34 prefetch.2.10.7: 'SRR15481028' has 0 unresolved dependencies Read 22785120 spots for SRR15481028/SRR15481028.sra Written 22785120 spots for SRR15481028/SRR15481028.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: 00:18:34 22785120 reads; of these: 22785120 (100.00%) were paired; of these: 3944122 (17.31%) aligned concordantly 0 times 17058648 (74.87%) aligned concordantly exactly 1 time 1782350 (7.82%) aligned concordantly >1 times ---- 3944122 pairs aligned concordantly 0 times; of these: 527001 (13.36%) aligned discordantly 1 time ---- 3417121 pairs aligned 0 times concordantly or discordantly; of these: 6834242 mates make up the pairs; of these: 4010878 (58.69%) aligned 0 times 2407534 (35.23%) aligned exactly 1 time 415830 (6.08%) aligned >1 times 91.20% overall alignment rate Time searching: 00:18:34 Overall time: 00:18:34 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 20 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] 5135363 / 19365831 = 0.2652 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 20:16:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.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 @ Sat, 15 Jan 2022 20:16:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:16:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:16:33: 1000000 INFO @ Sat, 15 Jan 2022 20:16:40: 2000000 INFO @ Sat, 15 Jan 2022 20:16:47: 3000000 INFO @ Sat, 15 Jan 2022 20:16:54: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 20:16:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.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 @ Sat, 15 Jan 2022 20:16:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:16:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:17:01: 5000000 INFO @ Sat, 15 Jan 2022 20:17:03: 1000000 INFO @ Sat, 15 Jan 2022 20:17:09: 6000000 INFO @ Sat, 15 Jan 2022 20:17:10: 2000000 INFO @ Sat, 15 Jan 2022 20:17:16: 7000000 INFO @ Sat, 15 Jan 2022 20:17:17: 3000000 INFO @ Sat, 15 Jan 2022 20:17:23: 8000000 INFO @ Sat, 15 Jan 2022 20:17:24: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 20:17:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.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 @ Sat, 15 Jan 2022 20:17:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:17:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:17:31: 9000000 INFO @ Sat, 15 Jan 2022 20:17:31: 5000000 INFO @ Sat, 15 Jan 2022 20:17:34: 1000000 INFO @ Sat, 15 Jan 2022 20:17:38: 10000000 INFO @ Sat, 15 Jan 2022 20:17:38: 6000000 INFO @ Sat, 15 Jan 2022 20:17:40: 2000000 INFO @ Sat, 15 Jan 2022 20:17:45: 7000000 INFO @ Sat, 15 Jan 2022 20:17:45: 11000000 INFO @ Sat, 15 Jan 2022 20:17:47: 3000000 INFO @ Sat, 15 Jan 2022 20:17:52: 8000000 INFO @ Sat, 15 Jan 2022 20:17:53: 12000000 INFO @ Sat, 15 Jan 2022 20:17:54: 4000000 INFO @ Sat, 15 Jan 2022 20:17:59: 9000000 INFO @ Sat, 15 Jan 2022 20:18:00: 13000000 INFO @ Sat, 15 Jan 2022 20:18:01: 5000000 INFO @ Sat, 15 Jan 2022 20:18:06: 10000000 INFO @ Sat, 15 Jan 2022 20:18:07: 14000000 INFO @ Sat, 15 Jan 2022 20:18:08: 6000000 INFO @ Sat, 15 Jan 2022 20:18:12: 11000000 INFO @ Sat, 15 Jan 2022 20:18:15: 7000000 INFO @ Sat, 15 Jan 2022 20:18:15: 15000000 INFO @ Sat, 15 Jan 2022 20:18:19: 12000000 INFO @ Sat, 15 Jan 2022 20:18:22: 8000000 INFO @ Sat, 15 Jan 2022 20:18:22: 16000000 INFO @ Sat, 15 Jan 2022 20:18:26: 13000000 INFO @ Sat, 15 Jan 2022 20:18:28: 9000000 INFO @ Sat, 15 Jan 2022 20:18:29: 17000000 INFO @ Sat, 15 Jan 2022 20:18:33: 14000000 INFO @ Sat, 15 Jan 2022 20:18:35: 10000000 INFO @ Sat, 15 Jan 2022 20:18:37: 18000000 INFO @ Sat, 15 Jan 2022 20:18:40: 15000000 INFO @ Sat, 15 Jan 2022 20:18:42: 11000000 INFO @ Sat, 15 Jan 2022 20:18:44: 19000000 INFO @ Sat, 15 Jan 2022 20:18:46: 16000000 INFO @ Sat, 15 Jan 2022 20:18:49: 12000000 INFO @ Sat, 15 Jan 2022 20:18:52: 20000000 INFO @ Sat, 15 Jan 2022 20:18:53: 17000000 INFO @ Sat, 15 Jan 2022 20:18:55: 13000000 INFO @ Sat, 15 Jan 2022 20:18:59: 21000000 INFO @ Sat, 15 Jan 2022 20:19:00: 18000000 INFO @ Sat, 15 Jan 2022 20:19:02: 14000000 INFO @ Sat, 15 Jan 2022 20:19:06: 22000000 INFO @ Sat, 15 Jan 2022 20:19:07: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:19:09: 15000000 INFO @ Sat, 15 Jan 2022 20:19:14: 20000000 INFO @ Sat, 15 Jan 2022 20:19:14: 23000000 INFO @ Sat, 15 Jan 2022 20:19:15: 16000000 INFO @ Sat, 15 Jan 2022 20:19:21: 21000000 INFO @ Sat, 15 Jan 2022 20:19:21: 24000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:19:22: 17000000 INFO @ Sat, 15 Jan 2022 20:19:28: 22000000 INFO @ Sat, 15 Jan 2022 20:19:29: 25000000 INFO @ Sat, 15 Jan 2022 20:19:29: 18000000 INFO @ Sat, 15 Jan 2022 20:19:34: 23000000 INFO @ Sat, 15 Jan 2022 20:19:36: 26000000 INFO @ Sat, 15 Jan 2022 20:19:36: 19000000 INFO @ Sat, 15 Jan 2022 20:19:41: 24000000 INFO @ Sat, 15 Jan 2022 20:19:43: 20000000 INFO @ Sat, 15 Jan 2022 20:19:44: 27000000 INFO @ Sat, 15 Jan 2022 20:19:48: 25000000 INFO @ Sat, 15 Jan 2022 20:19:50: 21000000 INFO @ Sat, 15 Jan 2022 20:19:51: 28000000 INFO @ Sat, 15 Jan 2022 20:19:55: 26000000 INFO @ Sat, 15 Jan 2022 20:19:57: 22000000 INFO @ Sat, 15 Jan 2022 20:19:58: 29000000 INFO @ Sat, 15 Jan 2022 20:20:02: 27000000 INFO @ Sat, 15 Jan 2022 20:20:03: 23000000 INFO @ Sat, 15 Jan 2022 20:20:06: 30000000 INFO @ Sat, 15 Jan 2022 20:20:08: 28000000 INFO @ Sat, 15 Jan 2022 20:20:10: 24000000 INFO @ Sat, 15 Jan 2022 20:20:13: 31000000 INFO @ Sat, 15 Jan 2022 20:20:15: 29000000 INFO @ Sat, 15 Jan 2022 20:20:15: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 20:20:15: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 20:20:15: #1 total tags in treatment: 13787945 INFO @ Sat, 15 Jan 2022 20:20:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:20:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 20:20:16: #1 tags after filtering in treatment: 6799370 INFO @ Sat, 15 Jan 2022 20:20:16: #1 Redundant rate of treatment: 0.51 INFO @ Sat, 15 Jan 2022 20:20:16: #1 finished! INFO @ Sat, 15 Jan 2022 20:20:16: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:20:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:20:16: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:20:16: 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 @ Sat, 15 Jan 2022 20:20:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.05_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/SRX11781085/SRX11781085.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:20:17: 25000000 INFO @ Sat, 15 Jan 2022 20:20:22: 30000000 INFO @ Sat, 15 Jan 2022 20:20:23: 26000000 INFO @ Sat, 15 Jan 2022 20:20:28: 31000000 INFO @ Sat, 15 Jan 2022 20:20:30: 27000000 INFO @ Sat, 15 Jan 2022 20:20:30: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 20:20:30: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 20:20:30: #1 total tags in treatment: 13787945 INFO @ Sat, 15 Jan 2022 20:20:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:20:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 20:20:31: #1 tags after filtering in treatment: 6799370 INFO @ Sat, 15 Jan 2022 20:20:31: #1 Redundant rate of treatment: 0.51 INFO @ Sat, 15 Jan 2022 20:20:31: #1 finished! INFO @ Sat, 15 Jan 2022 20:20:31: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:20:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:20:31: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:20:31: 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 @ Sat, 15 Jan 2022 20:20:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.10_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/SRX11781085/SRX11781085.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:20:36: 28000000 INFO @ Sat, 15 Jan 2022 20:20:42: 29000000 INFO @ Sat, 15 Jan 2022 20:20:48: 30000000 INFO @ Sat, 15 Jan 2022 20:20:54: 31000000 INFO @ Sat, 15 Jan 2022 20:20:56: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 20:20:56: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 20:20:56: #1 total tags in treatment: 13787945 INFO @ Sat, 15 Jan 2022 20:20:56: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:20:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 20:20:56: #1 tags after filtering in treatment: 6799370 INFO @ Sat, 15 Jan 2022 20:20:56: #1 Redundant rate of treatment: 0.51 INFO @ Sat, 15 Jan 2022 20:20:56: #1 finished! INFO @ Sat, 15 Jan 2022 20:20:56: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:20:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:20:57: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 20:20:57: 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 @ Sat, 15 Jan 2022 20:20:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.20_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/SRX11781085/SRX11781085.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781085/SRX11781085.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling