Job ID = 7112175 SRX = SRX8357684 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:20:33 prefetch.2.10.7: 1) Downloading 'SRR11806272'... 2020-07-22T05:20:33 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:21:31 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:21:32 prefetch.2.10.7: 'SRR11806272' is valid 2020-07-22T05:21:32 prefetch.2.10.7: 1) 'SRR11806272' was downloaded successfully 2020-07-22T05:21:32 prefetch.2.10.7: 'SRR11806272' has 0 unresolved dependencies Read 11429825 spots for SRR11806272/SRR11806272.sra Written 11429825 spots for SRR11806272/SRR11806272.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: 00:05:40 11429825 reads; of these: 11429825 (100.00%) were paired; of these: 730119 (6.39%) aligned concordantly 0 times 9271588 (81.12%) aligned concordantly exactly 1 time 1428118 (12.49%) aligned concordantly >1 times ---- 730119 pairs aligned concordantly 0 times; of these: 119356 (16.35%) aligned discordantly 1 time ---- 610763 pairs aligned 0 times concordantly or discordantly; of these: 1221526 mates make up the pairs; of these: 1034559 (84.69%) aligned 0 times 118456 (9.70%) aligned exactly 1 time 68511 (5.61%) aligned >1 times 95.47% overall alignment rate Time searching: 00:05:40 Overall time: 00:05:40 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] 1839174 / 10775393 = 0.1707 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 14:33:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.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 @ Wed, 22 Jul 2020 14:33:19: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:33:19: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:33:25: 1000000 INFO @ Wed, 22 Jul 2020 14:33:30: 2000000 INFO @ Wed, 22 Jul 2020 14:33:35: 3000000 INFO @ Wed, 22 Jul 2020 14:33:41: 4000000 INFO @ Wed, 22 Jul 2020 14:33:46: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 14:33:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.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 @ Wed, 22 Jul 2020 14:33:49: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:33:49: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:33:52: 6000000 INFO @ Wed, 22 Jul 2020 14:33:56: 1000000 INFO @ Wed, 22 Jul 2020 14:33:58: 7000000 INFO @ Wed, 22 Jul 2020 14:34:02: 2000000 INFO @ Wed, 22 Jul 2020 14:34:05: 8000000 INFO @ Wed, 22 Jul 2020 14:34:08: 3000000 INFO @ Wed, 22 Jul 2020 14:34:11: 9000000 INFO @ Wed, 22 Jul 2020 14:34:15: 4000000 INFO @ Wed, 22 Jul 2020 14:34:17: 10000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 14:34:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.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 @ Wed, 22 Jul 2020 14:34:19: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:34:19: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:34:21: 5000000 INFO @ Wed, 22 Jul 2020 14:34:24: 11000000 INFO @ Wed, 22 Jul 2020 14:34:27: 1000000 INFO @ Wed, 22 Jul 2020 14:34:28: 6000000 INFO @ Wed, 22 Jul 2020 14:34:31: 12000000 INFO @ Wed, 22 Jul 2020 14:34:34: 2000000 INFO @ Wed, 22 Jul 2020 14:34:35: 7000000 INFO @ Wed, 22 Jul 2020 14:34:39: 13000000 INFO @ Wed, 22 Jul 2020 14:34:42: 3000000 INFO @ Wed, 22 Jul 2020 14:34:43: 8000000 INFO @ Wed, 22 Jul 2020 14:34:46: 14000000 INFO @ Wed, 22 Jul 2020 14:34:49: 4000000 INFO @ Wed, 22 Jul 2020 14:34:50: 9000000 INFO @ Wed, 22 Jul 2020 14:34:53: 15000000 INFO @ Wed, 22 Jul 2020 14:34:57: 5000000 INFO @ Wed, 22 Jul 2020 14:34:57: 10000000 INFO @ Wed, 22 Jul 2020 14:35:00: 16000000 INFO @ Wed, 22 Jul 2020 14:35:04: 11000000 INFO @ Wed, 22 Jul 2020 14:35:04: 6000000 INFO @ Wed, 22 Jul 2020 14:35:07: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:35:11: 12000000 INFO @ Wed, 22 Jul 2020 14:35:11: 7000000 INFO @ Wed, 22 Jul 2020 14:35:14: 18000000 INFO @ Wed, 22 Jul 2020 14:35:15: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:35:15: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:35:15: #1 total tags in treatment: 8870176 INFO @ Wed, 22 Jul 2020 14:35:15: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:35:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:35:15: #1 tags after filtering in treatment: 4805970 INFO @ Wed, 22 Jul 2020 14:35:15: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Jul 2020 14:35:15: #1 finished! INFO @ Wed, 22 Jul 2020 14:35:15: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:35:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:35:16: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:35:16: 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 @ Wed, 22 Jul 2020 14:35:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:35:18: 13000000 INFO @ Wed, 22 Jul 2020 14:35:19: 8000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:35:25: 14000000 INFO @ Wed, 22 Jul 2020 14:35:26: 9000000 INFO @ Wed, 22 Jul 2020 14:35:32: 15000000 INFO @ Wed, 22 Jul 2020 14:35:33: 10000000 INFO @ Wed, 22 Jul 2020 14:35:39: 16000000 INFO @ Wed, 22 Jul 2020 14:35:41: 11000000 INFO @ Wed, 22 Jul 2020 14:35:46: 17000000 INFO @ Wed, 22 Jul 2020 14:35:48: 12000000 INFO @ Wed, 22 Jul 2020 14:35:53: 18000000 INFO @ Wed, 22 Jul 2020 14:35:54: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:35:54: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:35:54: #1 total tags in treatment: 8870176 INFO @ Wed, 22 Jul 2020 14:35:54: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:35:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:35:54: #1 tags after filtering in treatment: 4805970 INFO @ Wed, 22 Jul 2020 14:35:54: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Jul 2020 14:35:54: #1 finished! INFO @ Wed, 22 Jul 2020 14:35:54: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:35:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:35:55: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:35:55: 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 @ Wed, 22 Jul 2020 14:35:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.10_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/SRX8357684/SRX8357684.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:35:55: 13000000 INFO @ Wed, 22 Jul 2020 14:36:02: 14000000 INFO @ Wed, 22 Jul 2020 14:36:09: 15000000 INFO @ Wed, 22 Jul 2020 14:36:15: 16000000 INFO @ Wed, 22 Jul 2020 14:36:22: 17000000 INFO @ Wed, 22 Jul 2020 14:36:29: 18000000 INFO @ Wed, 22 Jul 2020 14:36:29: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:36:29: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:36:29: #1 total tags in treatment: 8870176 INFO @ Wed, 22 Jul 2020 14:36:29: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:36:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:36:30: #1 tags after filtering in treatment: 4805970 INFO @ Wed, 22 Jul 2020 14:36:30: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Jul 2020 14:36:30: #1 finished! INFO @ Wed, 22 Jul 2020 14:36:30: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:36:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:36:30: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:36:30: 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 @ Wed, 22 Jul 2020 14:36:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.20_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/SRX8357684/SRX8357684.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357684/SRX8357684.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling