Job ID = 7113238 SRX = SRX8357700 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:27:33 prefetch.2.10.7: 1) Downloading 'SRR11806288'... 2020-07-22T05:27:33 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:28:20 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:28:21 prefetch.2.10.7: 'SRR11806288' is valid 2020-07-22T05:28:21 prefetch.2.10.7: 1) 'SRR11806288' was downloaded successfully 2020-07-22T05:28:21 prefetch.2.10.7: 'SRR11806288' has 0 unresolved dependencies Read 11280213 spots for SRR11806288/SRR11806288.sra Written 11280213 spots for SRR11806288/SRR11806288.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: 00:05:47 11280213 reads; of these: 11280213 (100.00%) were paired; of these: 616920 (5.47%) aligned concordantly 0 times 9536343 (84.54%) aligned concordantly exactly 1 time 1126950 (9.99%) aligned concordantly >1 times ---- 616920 pairs aligned concordantly 0 times; of these: 73880 (11.98%) aligned discordantly 1 time ---- 543040 pairs aligned 0 times concordantly or discordantly; of these: 1086080 mates make up the pairs; of these: 861500 (79.32%) aligned 0 times 124141 (11.43%) aligned exactly 1 time 100439 (9.25%) aligned >1 times 96.18% overall alignment rate Time searching: 00:05:47 Overall time: 00:05:47 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] 1697955 / 10717175 = 0.1584 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 14:40:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.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 14:40:14: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:40:14: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:40:20: 1000000 INFO @ Wed, 22 Jul 2020 14:40:27: 2000000 INFO @ Wed, 22 Jul 2020 14:40:33: 3000000 INFO @ Wed, 22 Jul 2020 14:40:40: 4000000 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 14:40:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.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 14:40:44: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:40:44: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:40:46: 5000000 INFO @ Wed, 22 Jul 2020 14:40:51: 1000000 INFO @ Wed, 22 Jul 2020 14:40:53: 6000000 INFO @ Wed, 22 Jul 2020 14:40:58: 2000000 INFO @ Wed, 22 Jul 2020 14:41:00: 7000000 INFO @ Wed, 22 Jul 2020 14:41:05: 3000000 INFO @ Wed, 22 Jul 2020 14:41:07: 8000000 INFO @ Wed, 22 Jul 2020 14:41:11: 4000000 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 14:41:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.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 14:41:14: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:41:14: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:41:14: 9000000 INFO @ Wed, 22 Jul 2020 14:41:18: 5000000 INFO @ Wed, 22 Jul 2020 14:41:21: 1000000 INFO @ Wed, 22 Jul 2020 14:41:21: 10000000 INFO @ Wed, 22 Jul 2020 14:41:25: 6000000 INFO @ Wed, 22 Jul 2020 14:41:28: 2000000 INFO @ Wed, 22 Jul 2020 14:41:28: 11000000 INFO @ Wed, 22 Jul 2020 14:41:32: 7000000 INFO @ Wed, 22 Jul 2020 14:41:35: 3000000 INFO @ Wed, 22 Jul 2020 14:41:35: 12000000 INFO @ Wed, 22 Jul 2020 14:41:39: 8000000 INFO @ Wed, 22 Jul 2020 14:41:42: 4000000 INFO @ Wed, 22 Jul 2020 14:41:42: 13000000 INFO @ Wed, 22 Jul 2020 14:41:46: 9000000 INFO @ Wed, 22 Jul 2020 14:41:49: 5000000 INFO @ Wed, 22 Jul 2020 14:41:49: 14000000 INFO @ Wed, 22 Jul 2020 14:41:52: 10000000 INFO @ Wed, 22 Jul 2020 14:41:56: 6000000 INFO @ Wed, 22 Jul 2020 14:41:57: 15000000 INFO @ Wed, 22 Jul 2020 14:41:59: 11000000 INFO @ Wed, 22 Jul 2020 14:42:04: 16000000 INFO @ Wed, 22 Jul 2020 14:42:04: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:42:06: 12000000 INFO @ Wed, 22 Jul 2020 14:42:11: 17000000 INFO @ Wed, 22 Jul 2020 14:42:11: 8000000 INFO @ Wed, 22 Jul 2020 14:42:13: 13000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:42:18: 18000000 INFO @ Wed, 22 Jul 2020 14:42:18: 9000000 INFO @ Wed, 22 Jul 2020 14:42:19: 14000000 INFO @ Wed, 22 Jul 2020 14:42:20: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:42:20: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:42:20: #1 total tags in treatment: 8976834 INFO @ Wed, 22 Jul 2020 14:42:20: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:42:20: #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 14:42:20: #1 tags after filtering in treatment: 4866555 INFO @ Wed, 22 Jul 2020 14:42:20: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Jul 2020 14:42:20: #1 finished! INFO @ Wed, 22 Jul 2020 14:42:20: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:42:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:42:20: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:42:20: 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 @ Wed, 22 Jul 2020 14:42:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.05_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/SRX8357700/SRX8357700.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:42:25: 10000000 INFO @ Wed, 22 Jul 2020 14:42:26: 15000000 INFO @ Wed, 22 Jul 2020 14:42:32: 11000000 INFO @ Wed, 22 Jul 2020 14:42:33: 16000000 INFO @ Wed, 22 Jul 2020 14:42:39: 12000000 INFO @ Wed, 22 Jul 2020 14:42:40: 17000000 INFO @ Wed, 22 Jul 2020 14:42:46: 13000000 INFO @ Wed, 22 Jul 2020 14:42:46: 18000000 INFO @ Wed, 22 Jul 2020 14:42:48: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:42:48: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:42:48: #1 total tags in treatment: 8976834 INFO @ Wed, 22 Jul 2020 14:42:48: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:42:48: #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 14:42:49: #1 tags after filtering in treatment: 4866555 INFO @ Wed, 22 Jul 2020 14:42:49: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Jul 2020 14:42:49: #1 finished! INFO @ Wed, 22 Jul 2020 14:42:49: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:42:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:42:49: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:42:49: 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 14:42:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.10_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/SRX8357700/SRX8357700.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:42:53: 14000000 INFO @ Wed, 22 Jul 2020 14:43:00: 15000000 INFO @ Wed, 22 Jul 2020 14:43:07: 16000000 INFO @ Wed, 22 Jul 2020 14:43:13: 17000000 INFO @ Wed, 22 Jul 2020 14:43:20: 18000000 INFO @ Wed, 22 Jul 2020 14:43:22: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:43:22: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:43:22: #1 total tags in treatment: 8976834 INFO @ Wed, 22 Jul 2020 14:43:22: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:43:22: #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 14:43:22: #1 tags after filtering in treatment: 4866555 INFO @ Wed, 22 Jul 2020 14:43:22: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Jul 2020 14:43:22: #1 finished! INFO @ Wed, 22 Jul 2020 14:43:22: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:43:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:43:22: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:43:22: 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 14:43:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.20_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/SRX8357700/SRX8357700.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357700/SRX8357700.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling