Job ID = 14520464 SRX = SRX11781154 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:09:51 prefetch.2.10.7: 1) Downloading 'SRR15481097'... 2022-01-15T10:09:51 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:10:05 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:10:06 prefetch.2.10.7: 'SRR15481097' is valid 2022-01-15T10:10:06 prefetch.2.10.7: 1) 'SRR15481097' was downloaded successfully 2022-01-15T10:10:06 prefetch.2.10.7: 'SRR15481097' has 0 unresolved dependencies Read 6685722 spots for SRR15481097/SRR15481097.sra Written 6685722 spots for SRR15481097/SRR15481097.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: 00:03:41 6685722 reads; of these: 6685722 (100.00%) were paired; of these: 4242287 (63.45%) aligned concordantly 0 times 1794481 (26.84%) aligned concordantly exactly 1 time 648954 (9.71%) aligned concordantly >1 times ---- 4242287 pairs aligned concordantly 0 times; of these: 21021 (0.50%) aligned discordantly 1 time ---- 4221266 pairs aligned 0 times concordantly or discordantly; of these: 8442532 mates make up the pairs; of these: 4750199 (56.27%) aligned 0 times 2725227 (32.28%) aligned exactly 1 time 967106 (11.46%) aligned >1 times 64.48% overall alignment rate Time searching: 00:03:41 Overall time: 00:03:41 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] 158894 / 2463608 = 0.0645 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 19:16:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.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 19:16:38: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:16:38: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:16:42: 1000000 INFO @ Sat, 15 Jan 2022 19:16:46: 2000000 INFO @ Sat, 15 Jan 2022 19:16:49: 3000000 INFO @ Sat, 15 Jan 2022 19:16:53: 4000000 INFO @ Sat, 15 Jan 2022 19:16:57: 5000000 INFO @ Sat, 15 Jan 2022 19:17:00: 6000000 INFO @ Sat, 15 Jan 2022 19:17:04: 7000000 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 19:17:08: 8000000 INFO @ Sat, 15 Jan 2022 19:17:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.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 19:17:08: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:17:08: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:17:09: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:17:09: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:17:09: #1 total tags in treatment: 2285161 INFO @ Sat, 15 Jan 2022 19:17:09: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:17:09: #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 19:17:09: #1 tags after filtering in treatment: 1734013 INFO @ Sat, 15 Jan 2022 19:17:09: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 19:17:09: #1 finished! INFO @ Sat, 15 Jan 2022 19:17:09: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:17:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:17:09: #2 number of paired peaks: 87 WARNING @ Sat, 15 Jan 2022 19:17:09: Too few paired peaks (87) 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 19:17:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.05_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/SRX11781154/SRX11781154.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:17:12: 1000000 INFO @ Sat, 15 Jan 2022 19:17:16: 2000000 INFO @ Sat, 15 Jan 2022 19:17:19: 3000000 INFO @ Sat, 15 Jan 2022 19:17:23: 4000000 INFO @ Sat, 15 Jan 2022 19:17:27: 5000000 INFO @ Sat, 15 Jan 2022 19:17:30: 6000000 INFO @ Sat, 15 Jan 2022 19:17:34: 7000000 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 19:17:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.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 19:17:38: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:17:38: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:17:39: 8000000 INFO @ Sat, 15 Jan 2022 19:17:40: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:17:40: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:17:40: #1 total tags in treatment: 2285161 INFO @ Sat, 15 Jan 2022 19:17:40: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:17:40: #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 19:17:40: #1 tags after filtering in treatment: 1734013 INFO @ Sat, 15 Jan 2022 19:17:40: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 19:17:40: #1 finished! INFO @ Sat, 15 Jan 2022 19:17:40: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:17:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:17:40: #2 number of paired peaks: 87 WARNING @ Sat, 15 Jan 2022 19:17:40: Too few paired peaks (87) 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 19:17:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.10_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/SRX11781154/SRX11781154.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:17:43: 1000000 INFO @ Sat, 15 Jan 2022 19:17:46: 2000000 INFO @ Sat, 15 Jan 2022 19:17:50: 3000000 INFO @ Sat, 15 Jan 2022 19:17:54: 4000000 INFO @ Sat, 15 Jan 2022 19:17:58: 5000000 INFO @ Sat, 15 Jan 2022 19:18:01: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:18:05: 7000000 INFO @ Sat, 15 Jan 2022 19:18:09: 8000000 INFO @ Sat, 15 Jan 2022 19:18:10: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:18:10: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:18:10: #1 total tags in treatment: 2285161 INFO @ Sat, 15 Jan 2022 19:18:10: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:18:10: #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 19:18:10: #1 tags after filtering in treatment: 1734013 INFO @ Sat, 15 Jan 2022 19:18:10: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 19:18:10: #1 finished! INFO @ Sat, 15 Jan 2022 19:18:10: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:18:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:18:10: #2 number of paired peaks: 87 WARNING @ Sat, 15 Jan 2022 19:18:10: Too few paired peaks (87) 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 19:18:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.20_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/SRX11781154/SRX11781154.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781154/SRX11781154.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。