Job ID = 14520451 SRX = SRX11781031 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:07:37 prefetch.2.10.7: 1) Downloading 'SRR15480974'... 2022-01-15T10:07:37 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:08:03 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:08:04 prefetch.2.10.7: 'SRR15480974' is valid 2022-01-15T10:08:04 prefetch.2.10.7: 1) 'SRR15480974' was downloaded successfully 2022-01-15T10:08:04 prefetch.2.10.7: 'SRR15480974' has 0 unresolved dependencies Read 7674525 spots for SRR15480974/SRR15480974.sra Written 7674525 spots for SRR15480974/SRR15480974.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: 00:06:35 7674525 reads; of these: 7674525 (100.00%) were paired; of these: 1485352 (19.35%) aligned concordantly 0 times 5101727 (66.48%) aligned concordantly exactly 1 time 1087446 (14.17%) aligned concordantly >1 times ---- 1485352 pairs aligned concordantly 0 times; of these: 497857 (33.52%) aligned discordantly 1 time ---- 987495 pairs aligned 0 times concordantly or discordantly; of these: 1974990 mates make up the pairs; of these: 1640057 (83.04%) aligned 0 times 115191 (5.83%) aligned exactly 1 time 219742 (11.13%) aligned >1 times 89.31% overall alignment rate Time searching: 00:06:35 Overall time: 00:06:35 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] 186913 / 6640240 = 0.0281 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 19:19:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.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 19:19:38: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:19:38: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:19:43: 1000000 INFO @ Sat, 15 Jan 2022 19:19:49: 2000000 INFO @ Sat, 15 Jan 2022 19:19:54: 3000000 INFO @ Sat, 15 Jan 2022 19:19:59: 4000000 INFO @ Sat, 15 Jan 2022 19:20:05: 5000000 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 19:20:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.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 19:20:08: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:20:08: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:20:10: 6000000 INFO @ Sat, 15 Jan 2022 19:20:14: 1000000 INFO @ Sat, 15 Jan 2022 19:20:16: 7000000 INFO @ Sat, 15 Jan 2022 19:20:20: 2000000 INFO @ Sat, 15 Jan 2022 19:20:22: 8000000 INFO @ Sat, 15 Jan 2022 19:20:26: 3000000 INFO @ Sat, 15 Jan 2022 19:20:28: 9000000 INFO @ Sat, 15 Jan 2022 19:20:32: 4000000 INFO @ Sat, 15 Jan 2022 19:20:35: 10000000 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 19:20:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.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 19:20:38: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:20:38: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:20:38: 5000000 INFO @ Sat, 15 Jan 2022 19:20:42: 11000000 INFO @ Sat, 15 Jan 2022 19:20:45: 6000000 INFO @ Sat, 15 Jan 2022 19:20:45: 1000000 INFO @ Sat, 15 Jan 2022 19:20:49: 12000000 INFO @ Sat, 15 Jan 2022 19:20:51: 7000000 INFO @ Sat, 15 Jan 2022 19:20:53: 2000000 INFO @ Sat, 15 Jan 2022 19:20:56: 13000000 INFO @ Sat, 15 Jan 2022 19:20:58: 8000000 INFO @ Sat, 15 Jan 2022 19:20:58: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:20:58: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:20:58: #1 total tags in treatment: 6017225 INFO @ Sat, 15 Jan 2022 19:20:58: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:20:58: #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 19:20:58: #1 tags after filtering in treatment: 4650362 INFO @ Sat, 15 Jan 2022 19:20:58: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 19:20:58: #1 finished! INFO @ Sat, 15 Jan 2022 19:20:58: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:20:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:20:58: #2 number of paired peaks: 41 WARNING @ Sat, 15 Jan 2022 19:20:58: Too few paired peaks (41) 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 19:20:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.05_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/SRX11781031/SRX11781031.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:21:01: 3000000 INFO @ Sat, 15 Jan 2022 19:21:04: 9000000 INFO @ Sat, 15 Jan 2022 19:21:08: 4000000 INFO @ Sat, 15 Jan 2022 19:21:11: 10000000 INFO @ Sat, 15 Jan 2022 19:21:16: 5000000 INFO @ Sat, 15 Jan 2022 19:21:19: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:21:23: 6000000 INFO @ Sat, 15 Jan 2022 19:21:26: 12000000 INFO @ Sat, 15 Jan 2022 19:21:30: 7000000 INFO @ Sat, 15 Jan 2022 19:21:32: 13000000 INFO @ Sat, 15 Jan 2022 19:21:34: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:21:34: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:21:34: #1 total tags in treatment: 6017225 INFO @ Sat, 15 Jan 2022 19:21:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:21:34: #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 19:21:34: #1 tags after filtering in treatment: 4650362 INFO @ Sat, 15 Jan 2022 19:21:34: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 19:21:34: #1 finished! INFO @ Sat, 15 Jan 2022 19:21:34: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:21:34: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:21:35: #2 number of paired peaks: 41 WARNING @ Sat, 15 Jan 2022 19:21:35: Too few paired peaks (41) 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 19:21:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.10_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/SRX11781031/SRX11781031.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:21:37: 8000000 INFO @ Sat, 15 Jan 2022 19:21:44: 9000000 INFO @ Sat, 15 Jan 2022 19:21:50: 10000000 INFO @ Sat, 15 Jan 2022 19:21:56: 11000000 INFO @ Sat, 15 Jan 2022 19:22:02: 12000000 INFO @ Sat, 15 Jan 2022 19:22:09: 13000000 INFO @ Sat, 15 Jan 2022 19:22:11: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:22:11: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:22:11: #1 total tags in treatment: 6017225 INFO @ Sat, 15 Jan 2022 19:22:11: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:22:11: #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 19:22:11: #1 tags after filtering in treatment: 4650362 INFO @ Sat, 15 Jan 2022 19:22:11: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 19:22:11: #1 finished! INFO @ Sat, 15 Jan 2022 19:22:11: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:22:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:22:12: #2 number of paired peaks: 41 WARNING @ Sat, 15 Jan 2022 19:22:12: Too few paired peaks (41) 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 19:22:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.20_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/SRX11781031/SRX11781031.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781031/SRX11781031.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling