Job ID = 14520408 SRX = SRX11781134 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:02:51 prefetch.2.10.7: 1) Downloading 'SRR15481077'... 2022-01-15T10:02:51 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:03:08 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:03:09 prefetch.2.10.7: 'SRR15481077' is valid 2022-01-15T10:03:09 prefetch.2.10.7: 1) 'SRR15481077' was downloaded successfully 2022-01-15T10:03:09 prefetch.2.10.7: 'SRR15481077' has 0 unresolved dependencies Read 7612552 spots for SRR15481077/SRR15481077.sra Written 7612552 spots for SRR15481077/SRR15481077.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: 00:03:31 7612552 reads; of these: 7612552 (100.00%) were paired; of these: 4508234 (59.22%) aligned concordantly 0 times 2660126 (34.94%) aligned concordantly exactly 1 time 444192 (5.83%) aligned concordantly >1 times ---- 4508234 pairs aligned concordantly 0 times; of these: 25011 (0.55%) aligned discordantly 1 time ---- 4483223 pairs aligned 0 times concordantly or discordantly; of these: 8966446 mates make up the pairs; of these: 5120691 (57.11%) aligned 0 times 3258320 (36.34%) aligned exactly 1 time 587435 (6.55%) aligned >1 times 66.37% overall alignment rate Time searching: 00:03:31 Overall time: 00:03:31 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] 145987 / 3128456 = 0.0467 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 19:09:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.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 19:09:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:09:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:09:48: 1000000 INFO @ Sat, 15 Jan 2022 19:09:52: 2000000 INFO @ Sat, 15 Jan 2022 19:09:57: 3000000 INFO @ Sat, 15 Jan 2022 19:10:02: 4000000 INFO @ Sat, 15 Jan 2022 19:10:06: 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 19:10:11: 6000000 INFO @ Sat, 15 Jan 2022 19:10:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.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 19:10:14: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:10:14: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:10:16: 7000000 INFO @ Sat, 15 Jan 2022 19:10:19: 1000000 INFO @ Sat, 15 Jan 2022 19:10:21: 8000000 INFO @ Sat, 15 Jan 2022 19:10:24: 2000000 INFO @ Sat, 15 Jan 2022 19:10:26: 9000000 INFO @ Sat, 15 Jan 2022 19:10:29: 3000000 INFO @ Sat, 15 Jan 2022 19:10:30: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:10:30: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:10:30: #1 total tags in treatment: 2958994 INFO @ Sat, 15 Jan 2022 19:10:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:10:30: #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 19:10:30: #1 tags after filtering in treatment: 2454531 INFO @ Sat, 15 Jan 2022 19:10:30: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 19:10:30: #1 finished! INFO @ Sat, 15 Jan 2022 19:10:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:10:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:10:31: #2 number of paired peaks: 39 WARNING @ Sat, 15 Jan 2022 19:10:31: Too few paired peaks (39) 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 19:10:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.05_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/SRX11781134/SRX11781134.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:10:34: 4000000 INFO @ Sat, 15 Jan 2022 19:10:38: 5000000 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 19:10:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.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 19:10:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:10:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:10:43: 6000000 INFO @ Sat, 15 Jan 2022 19:10:47: 1000000 INFO @ Sat, 15 Jan 2022 19:10:48: 7000000 INFO @ Sat, 15 Jan 2022 19:10:51: 2000000 INFO @ Sat, 15 Jan 2022 19:10:53: 8000000 INFO @ Sat, 15 Jan 2022 19:10:56: 3000000 INFO @ Sat, 15 Jan 2022 19:10:58: 9000000 INFO @ Sat, 15 Jan 2022 19:11:00: 4000000 INFO @ Sat, 15 Jan 2022 19:11:02: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:11:02: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:11:02: #1 total tags in treatment: 2958994 INFO @ Sat, 15 Jan 2022 19:11:02: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:11:02: #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 19:11:02: #1 tags after filtering in treatment: 2454531 INFO @ Sat, 15 Jan 2022 19:11:02: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 19:11:02: #1 finished! INFO @ Sat, 15 Jan 2022 19:11:02: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:11:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:11:02: #2 number of paired peaks: 39 WARNING @ Sat, 15 Jan 2022 19:11:02: Too few paired peaks (39) 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 19:11:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.10_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/SRX11781134/SRX11781134.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:11:04: 5000000 INFO @ Sat, 15 Jan 2022 19:11:09: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:11:13: 7000000 INFO @ Sat, 15 Jan 2022 19:11:17: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:11:21: 9000000 INFO @ Sat, 15 Jan 2022 19:11:24: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:11:24: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:11:24: #1 total tags in treatment: 2958994 INFO @ Sat, 15 Jan 2022 19:11:24: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:11:24: #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 19:11:24: #1 tags after filtering in treatment: 2454531 INFO @ Sat, 15 Jan 2022 19:11:24: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 19:11:24: #1 finished! INFO @ Sat, 15 Jan 2022 19:11:24: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:11:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:11:25: #2 number of paired peaks: 39 WARNING @ Sat, 15 Jan 2022 19:11:25: Too few paired peaks (39) 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 19:11:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.20_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/SRX11781134/SRX11781134.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781134/SRX11781134.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling