Job ID = 14520441 SRX = SRX11781146 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:06:36 prefetch.2.10.7: 1) Downloading 'SRR15481089'... 2022-01-15T10:06:36 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:06:55 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:06:56 prefetch.2.10.7: 'SRR15481089' is valid 2022-01-15T10:06:56 prefetch.2.10.7: 1) 'SRR15481089' was downloaded successfully 2022-01-15T10:06:56 prefetch.2.10.7: 'SRR15481089' has 0 unresolved dependencies Read 10096220 spots for SRR15481089/SRR15481089.sra Written 10096220 spots for SRR15481089/SRR15481089.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: 00:05:24 10096220 reads; of these: 10096220 (100.00%) were paired; of these: 5916358 (58.60%) aligned concordantly 0 times 3406247 (33.74%) aligned concordantly exactly 1 time 773615 (7.66%) aligned concordantly >1 times ---- 5916358 pairs aligned concordantly 0 times; of these: 27076 (0.46%) aligned discordantly 1 time ---- 5889282 pairs aligned 0 times concordantly or discordantly; of these: 11778564 mates make up the pairs; of these: 6271997 (53.25%) aligned 0 times 4507859 (38.27%) aligned exactly 1 time 998708 (8.48%) aligned >1 times 68.94% overall alignment rate Time searching: 00:05:24 Overall time: 00:05:24 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] 203655 / 4205824 = 0.0484 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 19:16:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.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 19:16:33: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:16:33: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:16:39: 1000000 INFO @ Sat, 15 Jan 2022 19:16:45: 2000000 INFO @ Sat, 15 Jan 2022 19:16:50: 3000000 INFO @ Sat, 15 Jan 2022 19:16:54: 4000000 INFO @ Sat, 15 Jan 2022 19:16:59: 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 19:17:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.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 19:17:03: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:17:03: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:17:04: 6000000 INFO @ Sat, 15 Jan 2022 19:17:10: 7000000 INFO @ Sat, 15 Jan 2022 19:17:10: 1000000 INFO @ Sat, 15 Jan 2022 19:17:16: 8000000 INFO @ Sat, 15 Jan 2022 19:17:16: 2000000 INFO @ Sat, 15 Jan 2022 19:17:22: 9000000 INFO @ Sat, 15 Jan 2022 19:17:23: 3000000 INFO @ Sat, 15 Jan 2022 19:17:28: 10000000 INFO @ Sat, 15 Jan 2022 19:17:30: 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 19:17:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.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 19:17:33: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:17:33: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:17:34: 11000000 INFO @ Sat, 15 Jan 2022 19:17:37: 5000000 INFO @ Sat, 15 Jan 2022 19:17:40: 1000000 INFO @ Sat, 15 Jan 2022 19:17:40: 12000000 INFO @ Sat, 15 Jan 2022 19:17:43: 6000000 INFO @ Sat, 15 Jan 2022 19:17:46: 13000000 INFO @ Sat, 15 Jan 2022 19:17:47: 2000000 INFO @ Sat, 15 Jan 2022 19:17:49: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:17:49: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:17:49: #1 total tags in treatment: 3976891 INFO @ Sat, 15 Jan 2022 19:17:49: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:17:49: #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 19:17:49: #1 tags after filtering in treatment: 3104260 INFO @ Sat, 15 Jan 2022 19:17:49: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 15 Jan 2022 19:17:49: #1 finished! INFO @ Sat, 15 Jan 2022 19:17:49: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:17:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:17:50: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 19:17:50: Too few paired peaks (30) 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 19:17:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.05_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/SRX11781146/SRX11781146.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:17:50: 7000000 INFO @ Sat, 15 Jan 2022 19:17:53: 3000000 INFO @ Sat, 15 Jan 2022 19:17:57: 8000000 INFO @ Sat, 15 Jan 2022 19:17:59: 4000000 INFO @ Sat, 15 Jan 2022 19:18:03: 9000000 INFO @ Sat, 15 Jan 2022 19:18:06: 5000000 INFO @ Sat, 15 Jan 2022 19:18:10: 10000000 INFO @ Sat, 15 Jan 2022 19:18:12: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:18:16: 11000000 INFO @ Sat, 15 Jan 2022 19:18:19: 7000000 INFO @ Sat, 15 Jan 2022 19:18:22: 12000000 INFO @ Sat, 15 Jan 2022 19:18:25: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:18:29: 13000000 INFO @ Sat, 15 Jan 2022 19:18:31: 9000000 INFO @ Sat, 15 Jan 2022 19:18:32: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:18:32: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:18:32: #1 total tags in treatment: 3976891 INFO @ Sat, 15 Jan 2022 19:18:32: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:18:32: #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 19:18:32: #1 tags after filtering in treatment: 3104260 INFO @ Sat, 15 Jan 2022 19:18:32: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 15 Jan 2022 19:18:32: #1 finished! INFO @ Sat, 15 Jan 2022 19:18:32: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:18:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:18:32: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 19:18:32: Too few paired peaks (30) 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 19:18:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.10_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/SRX11781146/SRX11781146.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:18:37: 10000000 INFO @ Sat, 15 Jan 2022 19:18:43: 11000000 INFO @ Sat, 15 Jan 2022 19:18:49: 12000000 INFO @ Sat, 15 Jan 2022 19:18:55: 13000000 INFO @ Sat, 15 Jan 2022 19:18:57: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:18:57: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:18:57: #1 total tags in treatment: 3976891 INFO @ Sat, 15 Jan 2022 19:18:57: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:18:57: #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 19:18:58: #1 tags after filtering in treatment: 3104260 INFO @ Sat, 15 Jan 2022 19:18:58: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 15 Jan 2022 19:18:58: #1 finished! INFO @ Sat, 15 Jan 2022 19:18:58: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:18:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:18:58: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 19:18:58: Too few paired peaks (30) 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 19:18:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.20_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/SRX11781146/SRX11781146.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781146/SRX11781146.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling