Job ID = 7111363 SRX = SRX8357658 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:05:28 prefetch.2.10.7: 1) Downloading 'SRR11806246'... 2020-07-22T05:05:28 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:09:02 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:09:02 prefetch.2.10.7: 1) 'SRR11806246' was downloaded successfully 2020-07-22T05:09:02 prefetch.2.10.7: 'SRR11806246' has 0 unresolved dependencies Read 26461543 spots for SRR11806246/SRR11806246.sra Written 26461543 spots for SRR11806246/SRR11806246.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: 00:31:35 26461543 reads; of these: 26461543 (100.00%) were paired; of these: 7981417 (30.16%) aligned concordantly 0 times 15137469 (57.21%) aligned concordantly exactly 1 time 3342657 (12.63%) aligned concordantly >1 times ---- 7981417 pairs aligned concordantly 0 times; of these: 1443555 (18.09%) aligned discordantly 1 time ---- 6537862 pairs aligned 0 times concordantly or discordantly; of these: 13075724 mates make up the pairs; of these: 11715224 (89.60%) aligned 0 times 512145 (3.92%) aligned exactly 1 time 848355 (6.49%) aligned >1 times 77.86% overall alignment rate Time searching: 00:31:35 Overall time: 00:31:35 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 32 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] 10280441 / 19811607 = 0.5189 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 14:55:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.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 14:55:09: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:55:09: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:55:17: 1000000 INFO @ Wed, 22 Jul 2020 14:55:24: 2000000 INFO @ Wed, 22 Jul 2020 14:55:31: 3000000 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 14:55:39: 4000000 INFO @ Wed, 22 Jul 2020 14:55:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.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 14:55:39: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:55:39: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:55:47: 5000000 INFO @ Wed, 22 Jul 2020 14:55:49: 1000000 INFO @ Wed, 22 Jul 2020 14:55:55: 6000000 INFO @ Wed, 22 Jul 2020 14:55:58: 2000000 INFO @ Wed, 22 Jul 2020 14:56:04: 7000000 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 14:56:08: 3000000 INFO @ Wed, 22 Jul 2020 14:56:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.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 14:56:09: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:56:09: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:56:13: 8000000 INFO @ Wed, 22 Jul 2020 14:56:17: 4000000 INFO @ Wed, 22 Jul 2020 14:56:20: 1000000 INFO @ Wed, 22 Jul 2020 14:56:22: 9000000 INFO @ Wed, 22 Jul 2020 14:56:27: 5000000 INFO @ Wed, 22 Jul 2020 14:56:30: 2000000 INFO @ Wed, 22 Jul 2020 14:56:31: 10000000 INFO @ Wed, 22 Jul 2020 14:56:36: 6000000 INFO @ Wed, 22 Jul 2020 14:56:39: 11000000 INFO @ Wed, 22 Jul 2020 14:56:40: 3000000 INFO @ Wed, 22 Jul 2020 14:56:46: 7000000 INFO @ Wed, 22 Jul 2020 14:56:48: 12000000 INFO @ Wed, 22 Jul 2020 14:56:50: 4000000 INFO @ Wed, 22 Jul 2020 14:56:56: 8000000 INFO @ Wed, 22 Jul 2020 14:56:57: 13000000 INFO @ Wed, 22 Jul 2020 14:57:00: 5000000 INFO @ Wed, 22 Jul 2020 14:57:05: 9000000 INFO @ Wed, 22 Jul 2020 14:57:06: 14000000 INFO @ Wed, 22 Jul 2020 14:57:10: 6000000 INFO @ Wed, 22 Jul 2020 14:57:15: 15000000 INFO @ Wed, 22 Jul 2020 14:57:15: 10000000 INFO @ Wed, 22 Jul 2020 14:57:21: 7000000 INFO @ Wed, 22 Jul 2020 14:57:24: 16000000 INFO @ Wed, 22 Jul 2020 14:57:25: 11000000 INFO @ Wed, 22 Jul 2020 14:57:30: 8000000 INFO @ Wed, 22 Jul 2020 14:57:33: 17000000 INFO @ Wed, 22 Jul 2020 14:57:35: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:57:40: 9000000 INFO @ Wed, 22 Jul 2020 14:57:43: 18000000 INFO @ Wed, 22 Jul 2020 14:57:45: 13000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:57:50: 10000000 INFO @ Wed, 22 Jul 2020 14:57:52: 19000000 INFO @ Wed, 22 Jul 2020 14:57:54: 14000000 INFO @ Wed, 22 Jul 2020 14:58:00: 11000000 INFO @ Wed, 22 Jul 2020 14:58:01: 20000000 INFO @ Wed, 22 Jul 2020 14:58:04: 15000000 INFO @ Wed, 22 Jul 2020 14:58:07: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 14:58:07: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 14:58:07: #1 total tags in treatment: 8504643 INFO @ Wed, 22 Jul 2020 14:58:07: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:58:07: #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 14:58:07: #1 tags after filtering in treatment: 4416198 INFO @ Wed, 22 Jul 2020 14:58:07: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 22 Jul 2020 14:58:07: #1 finished! INFO @ Wed, 22 Jul 2020 14:58:07: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:58:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:58:07: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:58:07: 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 14:58:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.05_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/SRX8357658/SRX8357658.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:58:10: 12000000 INFO @ Wed, 22 Jul 2020 14:58:14: 16000000 INFO @ Wed, 22 Jul 2020 14:58:20: 13000000 INFO @ Wed, 22 Jul 2020 14:58:24: 17000000 INFO @ Wed, 22 Jul 2020 14:58:29: 14000000 INFO @ Wed, 22 Jul 2020 14:58:34: 18000000 INFO @ Wed, 22 Jul 2020 14:58:39: 15000000 INFO @ Wed, 22 Jul 2020 14:58:44: 19000000 INFO @ Wed, 22 Jul 2020 14:58:50: 16000000 INFO @ Wed, 22 Jul 2020 14:58:54: 20000000 INFO @ Wed, 22 Jul 2020 14:58:59: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 14:58:59: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 14:58:59: #1 total tags in treatment: 8504643 INFO @ Wed, 22 Jul 2020 14:58:59: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:58:59: #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 14:59:00: #1 tags after filtering in treatment: 4416198 INFO @ Wed, 22 Jul 2020 14:59:00: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 22 Jul 2020 14:59:00: #1 finished! INFO @ Wed, 22 Jul 2020 14:59:00: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:59:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:59:00: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:59:00: 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 14:59:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.10_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/SRX8357658/SRX8357658.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:59:00: 17000000 INFO @ Wed, 22 Jul 2020 14:59:10: 18000000 INFO @ Wed, 22 Jul 2020 14:59:20: 19000000 INFO @ Wed, 22 Jul 2020 14:59:30: 20000000 INFO @ Wed, 22 Jul 2020 14:59:36: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 14:59:36: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 14:59:36: #1 total tags in treatment: 8504643 INFO @ Wed, 22 Jul 2020 14:59:36: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:59:36: #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 14:59:36: #1 tags after filtering in treatment: 4416198 INFO @ Wed, 22 Jul 2020 14:59:36: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 22 Jul 2020 14:59:36: #1 finished! INFO @ Wed, 22 Jul 2020 14:59:36: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:59:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:59:36: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:59:36: 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 14:59:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.20_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/SRX8357658/SRX8357658.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357658/SRX8357658.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling