Job ID = 7112679 SRX = SRX8357687 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:22:03 prefetch.2.10.7: 1) Downloading 'SRR11806275'... 2020-07-22T05:22:03 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:24:18 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:24:18 prefetch.2.10.7: 1) 'SRR11806275' was downloaded successfully 2020-07-22T05:24:18 prefetch.2.10.7: 'SRR11806275' has 0 unresolved dependencies Read 29755418 spots for SRR11806275/SRR11806275.sra Written 29755418 spots for SRR11806275/SRR11806275.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: 00:15:48 29755418 reads; of these: 29755418 (100.00%) were paired; of these: 1245001 (4.18%) aligned concordantly 0 times 25018996 (84.08%) aligned concordantly exactly 1 time 3491421 (11.73%) aligned concordantly >1 times ---- 1245001 pairs aligned concordantly 0 times; of these: 165551 (13.30%) aligned discordantly 1 time ---- 1079450 pairs aligned 0 times concordantly or discordantly; of these: 2158900 mates make up the pairs; of these: 1678258 (77.74%) aligned 0 times 181925 (8.43%) aligned exactly 1 time 298717 (13.84%) aligned >1 times 97.18% overall alignment rate Time searching: 00:15:48 Overall time: 00:15:48 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 24 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] 10329029 / 28621653 = 0.3609 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 14:51:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.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 14:51:33: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:51:33: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:51:38: 1000000 INFO @ Wed, 22 Jul 2020 14:51:44: 2000000 INFO @ Wed, 22 Jul 2020 14:51:49: 3000000 INFO @ Wed, 22 Jul 2020 14:51:55: 4000000 INFO @ Wed, 22 Jul 2020 14:52:00: 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 14:52:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.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 14:52:03: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:52:03: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:52:07: 6000000 INFO @ Wed, 22 Jul 2020 14:52:09: 1000000 INFO @ Wed, 22 Jul 2020 14:52:13: 7000000 INFO @ Wed, 22 Jul 2020 14:52:16: 2000000 INFO @ Wed, 22 Jul 2020 14:52:19: 8000000 INFO @ Wed, 22 Jul 2020 14:52:22: 3000000 INFO @ Wed, 22 Jul 2020 14:52:26: 9000000 INFO @ Wed, 22 Jul 2020 14:52:28: 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 14:52:32: 10000000 INFO @ Wed, 22 Jul 2020 14:52:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.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 14:52:33: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:52:33: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:52:35: 5000000 INFO @ Wed, 22 Jul 2020 14:52:38: 11000000 INFO @ Wed, 22 Jul 2020 14:52:40: 1000000 INFO @ Wed, 22 Jul 2020 14:52:41: 6000000 INFO @ Wed, 22 Jul 2020 14:52:45: 12000000 INFO @ Wed, 22 Jul 2020 14:52:46: 2000000 INFO @ Wed, 22 Jul 2020 14:52:47: 7000000 INFO @ Wed, 22 Jul 2020 14:52:52: 13000000 INFO @ Wed, 22 Jul 2020 14:52:53: 3000000 INFO @ Wed, 22 Jul 2020 14:52:54: 8000000 INFO @ Wed, 22 Jul 2020 14:52:58: 14000000 INFO @ Wed, 22 Jul 2020 14:52:59: 4000000 INFO @ Wed, 22 Jul 2020 14:53:00: 9000000 INFO @ Wed, 22 Jul 2020 14:53:05: 15000000 INFO @ Wed, 22 Jul 2020 14:53:06: 5000000 INFO @ Wed, 22 Jul 2020 14:53:07: 10000000 INFO @ Wed, 22 Jul 2020 14:53:11: 16000000 INFO @ Wed, 22 Jul 2020 14:53:13: 6000000 INFO @ Wed, 22 Jul 2020 14:53:13: 11000000 INFO @ Wed, 22 Jul 2020 14:53:18: 17000000 INFO @ Wed, 22 Jul 2020 14:53:19: 7000000 INFO @ Wed, 22 Jul 2020 14:53:20: 12000000 INFO @ Wed, 22 Jul 2020 14:53:25: 18000000 INFO @ Wed, 22 Jul 2020 14:53:26: 8000000 INFO @ Wed, 22 Jul 2020 14:53:26: 13000000 INFO @ Wed, 22 Jul 2020 14:53:31: 19000000 INFO @ Wed, 22 Jul 2020 14:53:32: 9000000 INFO @ Wed, 22 Jul 2020 14:53:33: 14000000 INFO @ Wed, 22 Jul 2020 14:53:38: 20000000 INFO @ Wed, 22 Jul 2020 14:53:39: 10000000 INFO @ Wed, 22 Jul 2020 14:53:39: 15000000 INFO @ Wed, 22 Jul 2020 14:53:45: 21000000 INFO @ Wed, 22 Jul 2020 14:53:46: 11000000 INFO @ Wed, 22 Jul 2020 14:53:46: 16000000 INFO @ Wed, 22 Jul 2020 14:53:51: 22000000 INFO @ Wed, 22 Jul 2020 14:53:53: 17000000 INFO @ Wed, 22 Jul 2020 14:53:53: 12000000 INFO @ Wed, 22 Jul 2020 14:53:58: 23000000 INFO @ Wed, 22 Jul 2020 14:53:59: 18000000 INFO @ Wed, 22 Jul 2020 14:53:59: 13000000 INFO @ Wed, 22 Jul 2020 14:54:04: 24000000 INFO @ Wed, 22 Jul 2020 14:54:06: 19000000 INFO @ Wed, 22 Jul 2020 14:54:06: 14000000 INFO @ Wed, 22 Jul 2020 14:54:11: 25000000 INFO @ Wed, 22 Jul 2020 14:54:13: 20000000 INFO @ Wed, 22 Jul 2020 14:54:13: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:54:18: 26000000 INFO @ Wed, 22 Jul 2020 14:54:19: 21000000 INFO @ Wed, 22 Jul 2020 14:54:19: 16000000 INFO @ Wed, 22 Jul 2020 14:54:24: 27000000 INFO @ Wed, 22 Jul 2020 14:54:26: 22000000 INFO @ Wed, 22 Jul 2020 14:54:26: 17000000 INFO @ Wed, 22 Jul 2020 14:54:31: 28000000 INFO @ Wed, 22 Jul 2020 14:54:33: 23000000 INFO @ Wed, 22 Jul 2020 14:54:33: 18000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:54:38: 29000000 INFO @ Wed, 22 Jul 2020 14:54:39: 24000000 INFO @ Wed, 22 Jul 2020 14:54:39: 19000000 INFO @ Wed, 22 Jul 2020 14:54:44: 30000000 INFO @ Wed, 22 Jul 2020 14:54:46: 25000000 INFO @ Wed, 22 Jul 2020 14:54:46: 20000000 INFO @ Wed, 22 Jul 2020 14:54:51: 31000000 INFO @ Wed, 22 Jul 2020 14:54:52: 26000000 INFO @ Wed, 22 Jul 2020 14:54:53: 21000000 INFO @ Wed, 22 Jul 2020 14:54:58: 32000000 INFO @ Wed, 22 Jul 2020 14:54:59: 27000000 INFO @ Wed, 22 Jul 2020 14:54:59: 22000000 INFO @ Wed, 22 Jul 2020 14:55:04: 33000000 INFO @ Wed, 22 Jul 2020 14:55:06: 28000000 INFO @ Wed, 22 Jul 2020 14:55:06: 23000000 INFO @ Wed, 22 Jul 2020 14:55:11: 34000000 INFO @ Wed, 22 Jul 2020 14:55:12: 29000000 INFO @ Wed, 22 Jul 2020 14:55:13: 24000000 INFO @ Wed, 22 Jul 2020 14:55:17: 35000000 INFO @ Wed, 22 Jul 2020 14:55:19: 30000000 INFO @ Wed, 22 Jul 2020 14:55:19: 25000000 INFO @ Wed, 22 Jul 2020 14:55:24: 36000000 INFO @ Wed, 22 Jul 2020 14:55:25: 31000000 INFO @ Wed, 22 Jul 2020 14:55:26: 26000000 INFO @ Wed, 22 Jul 2020 14:55:31: 37000000 INFO @ Wed, 22 Jul 2020 14:55:32: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:55:32: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:55:32: #1 total tags in treatment: 18235510 INFO @ Wed, 22 Jul 2020 14:55:32: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:55:32: #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 14:55:32: 32000000 INFO @ Wed, 22 Jul 2020 14:55:32: #1 tags after filtering in treatment: 7028399 INFO @ Wed, 22 Jul 2020 14:55:32: #1 Redundant rate of treatment: 0.61 INFO @ Wed, 22 Jul 2020 14:55:32: #1 finished! INFO @ Wed, 22 Jul 2020 14:55:32: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:55:32: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:55:33: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:55:33: 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 14:55:33: Process for pairing-model is terminated! INFO @ Wed, 22 Jul 2020 14:55:33: 27000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.05_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/SRX8357687/SRX8357687.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:55:39: 33000000 INFO @ Wed, 22 Jul 2020 14:55:39: 28000000 INFO @ Wed, 22 Jul 2020 14:55:45: 34000000 INFO @ Wed, 22 Jul 2020 14:55:46: 29000000 INFO @ Wed, 22 Jul 2020 14:55:52: 35000000 INFO @ Wed, 22 Jul 2020 14:55:53: 30000000 INFO @ Wed, 22 Jul 2020 14:55:58: 36000000 INFO @ Wed, 22 Jul 2020 14:55:59: 31000000 INFO @ Wed, 22 Jul 2020 14:56:05: 37000000 INFO @ Wed, 22 Jul 2020 14:56:06: 32000000 INFO @ Wed, 22 Jul 2020 14:56:06: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:56:06: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:56:06: #1 total tags in treatment: 18235510 INFO @ Wed, 22 Jul 2020 14:56:06: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:56:06: #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 14:56:06: #1 tags after filtering in treatment: 7028399 INFO @ Wed, 22 Jul 2020 14:56:06: #1 Redundant rate of treatment: 0.61 INFO @ Wed, 22 Jul 2020 14:56:06: #1 finished! INFO @ Wed, 22 Jul 2020 14:56:06: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:56:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:56:07: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:56:07: 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 14:56:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.10_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/SRX8357687/SRX8357687.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:56:12: 33000000 INFO @ Wed, 22 Jul 2020 14:56:18: 34000000 INFO @ Wed, 22 Jul 2020 14:56:23: 35000000 INFO @ Wed, 22 Jul 2020 14:56:29: 36000000 INFO @ Wed, 22 Jul 2020 14:56:35: 37000000 INFO @ Wed, 22 Jul 2020 14:56:36: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:56:36: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:56:36: #1 total tags in treatment: 18235510 INFO @ Wed, 22 Jul 2020 14:56:36: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:56:36: #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 14:56:36: #1 tags after filtering in treatment: 7028399 INFO @ Wed, 22 Jul 2020 14:56:36: #1 Redundant rate of treatment: 0.61 INFO @ Wed, 22 Jul 2020 14:56:36: #1 finished! INFO @ Wed, 22 Jul 2020 14:56:36: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:56:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:56:37: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:56:37: 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 14:56:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.20_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/SRX8357687/SRX8357687.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357687/SRX8357687.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling