Job ID = 14520479 SRX = SRX11781043 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:12:23 prefetch.2.10.7: 1) Downloading 'SRR15480986'... 2022-01-15T10:12:23 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:13:11 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:13:11 prefetch.2.10.7: 1) 'SRR15480986' was downloaded successfully 2022-01-15T10:13:11 prefetch.2.10.7: 'SRR15480986' has 0 unresolved dependencies Read 12049770 spots for SRR15480986/SRR15480986.sra Written 12049770 spots for SRR15480986/SRR15480986.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: 00:09:43 12049770 reads; of these: 12049770 (100.00%) were paired; of these: 1586175 (13.16%) aligned concordantly 0 times 7993697 (66.34%) aligned concordantly exactly 1 time 2469898 (20.50%) aligned concordantly >1 times ---- 1586175 pairs aligned concordantly 0 times; of these: 375697 (23.69%) aligned discordantly 1 time ---- 1210478 pairs aligned 0 times concordantly or discordantly; of these: 2420956 mates make up the pairs; of these: 1732982 (71.58%) aligned 0 times 327473 (13.53%) aligned exactly 1 time 360501 (14.89%) aligned >1 times 92.81% overall alignment rate Time searching: 00:09:43 Overall time: 00:09:43 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 12 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] 1003077 / 10781273 = 0.0930 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 19:31:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.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 19:31:41: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:31:41: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:31:46: 1000000 INFO @ Sat, 15 Jan 2022 19:31:52: 2000000 INFO @ Sat, 15 Jan 2022 19:31:58: 3000000 INFO @ Sat, 15 Jan 2022 19:32:03: 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 19:32:09: 5000000 INFO @ Sat, 15 Jan 2022 19:32:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.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 19:32:10: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:32:10: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:32:15: 6000000 INFO @ Sat, 15 Jan 2022 19:32:16: 1000000 INFO @ Sat, 15 Jan 2022 19:32:21: 7000000 INFO @ Sat, 15 Jan 2022 19:32:21: 2000000 INFO @ Sat, 15 Jan 2022 19:32:26: 3000000 INFO @ Sat, 15 Jan 2022 19:32:27: 8000000 INFO @ Sat, 15 Jan 2022 19:32:31: 4000000 INFO @ Sat, 15 Jan 2022 19:32:32: 9000000 INFO @ Sat, 15 Jan 2022 19:32:36: 5000000 INFO @ Sat, 15 Jan 2022 19:32:38: 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 19:32:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.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 19:32:41: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:32:41: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:32:41: 6000000 INFO @ Sat, 15 Jan 2022 19:32:44: 11000000 INFO @ Sat, 15 Jan 2022 19:32:46: 1000000 INFO @ Sat, 15 Jan 2022 19:32:46: 7000000 INFO @ Sat, 15 Jan 2022 19:32:50: 12000000 INFO @ Sat, 15 Jan 2022 19:32:51: 8000000 INFO @ Sat, 15 Jan 2022 19:32:51: 2000000 INFO @ Sat, 15 Jan 2022 19:32:55: 9000000 INFO @ Sat, 15 Jan 2022 19:32:56: 13000000 INFO @ Sat, 15 Jan 2022 19:32:56: 3000000 INFO @ Sat, 15 Jan 2022 19:33:00: 10000000 INFO @ Sat, 15 Jan 2022 19:33:00: 4000000 INFO @ Sat, 15 Jan 2022 19:33:01: 14000000 INFO @ Sat, 15 Jan 2022 19:33:05: 11000000 INFO @ Sat, 15 Jan 2022 19:33:05: 5000000 INFO @ Sat, 15 Jan 2022 19:33:07: 15000000 INFO @ Sat, 15 Jan 2022 19:33:10: 12000000 INFO @ Sat, 15 Jan 2022 19:33:10: 6000000 INFO @ Sat, 15 Jan 2022 19:33:13: 16000000 INFO @ Sat, 15 Jan 2022 19:33:15: 13000000 INFO @ Sat, 15 Jan 2022 19:33:15: 7000000 INFO @ Sat, 15 Jan 2022 19:33:19: 17000000 INFO @ Sat, 15 Jan 2022 19:33:20: 14000000 INFO @ Sat, 15 Jan 2022 19:33:20: 8000000 INFO @ Sat, 15 Jan 2022 19:33:24: 15000000 INFO @ Sat, 15 Jan 2022 19:33:25: 18000000 INFO @ Sat, 15 Jan 2022 19:33:25: 9000000 INFO @ Sat, 15 Jan 2022 19:33:29: 16000000 INFO @ Sat, 15 Jan 2022 19:33:30: 10000000 INFO @ Sat, 15 Jan 2022 19:33:30: 19000000 INFO @ Sat, 15 Jan 2022 19:33:34: 17000000 INFO @ Sat, 15 Jan 2022 19:33:34: 11000000 INFO @ Sat, 15 Jan 2022 19:33:36: 20000000 INFO @ Sat, 15 Jan 2022 19:33:38: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:33:38: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:33:38: #1 total tags in treatment: 9483107 INFO @ Sat, 15 Jan 2022 19:33:38: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:33:38: #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 19:33:38: #1 tags after filtering in treatment: 6342104 INFO @ Sat, 15 Jan 2022 19:33:38: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 19:33:38: #1 finished! INFO @ Sat, 15 Jan 2022 19:33:38: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:33:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:33:39: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:33:39: 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 19:33:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.05_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/SRX11781043/SRX11781043.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:33:39: 18000000 INFO @ Sat, 15 Jan 2022 19:33:39: 12000000 INFO @ Sat, 15 Jan 2022 19:33:44: 13000000 INFO @ Sat, 15 Jan 2022 19:33:44: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:33:49: 14000000 INFO @ Sat, 15 Jan 2022 19:33:49: 20000000 INFO @ Sat, 15 Jan 2022 19:33:51: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:33:51: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:33:51: #1 total tags in treatment: 9483107 INFO @ Sat, 15 Jan 2022 19:33:51: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:33:51: #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 19:33:51: #1 tags after filtering in treatment: 6342104 INFO @ Sat, 15 Jan 2022 19:33:51: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 19:33:51: #1 finished! INFO @ Sat, 15 Jan 2022 19:33:51: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:33:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:33:51: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:33:51: 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 19:33:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.10_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/SRX11781043/SRX11781043.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:33:54: 15000000 INFO @ Sat, 15 Jan 2022 19:33:58: 16000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:34:03: 17000000 INFO @ Sat, 15 Jan 2022 19:34:08: 18000000 INFO @ Sat, 15 Jan 2022 19:34:13: 19000000 INFO @ Sat, 15 Jan 2022 19:34:17: 20000000 INFO @ Sat, 15 Jan 2022 19:34:19: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:34:19: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:34:19: #1 total tags in treatment: 9483107 INFO @ Sat, 15 Jan 2022 19:34:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:34:19: #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 19:34:19: #1 tags after filtering in treatment: 6342104 INFO @ Sat, 15 Jan 2022 19:34:19: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 19:34:19: #1 finished! INFO @ Sat, 15 Jan 2022 19:34:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:34:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:34:20: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:34:20: 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 19:34:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.20_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/SRX11781043/SRX11781043.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781043/SRX11781043.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling