Job ID = 7115767 SRX = SRX8639459 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:12:09 prefetch.2.10.7: 1) Downloading 'SRR12117031'... 2020-07-22T06:12:09 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:14:00 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:14:00 prefetch.2.10.7: 1) 'SRR12117031' was downloaded successfully 2020-07-22T06:14:00 prefetch.2.10.7: 'SRR12117031' has 0 unresolved dependencies Read 21099016 spots for SRR12117031/SRR12117031.sra Written 21099016 spots for SRR12117031/SRR12117031.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: 00:09:26 21099016 reads; of these: 21099016 (100.00%) were paired; of these: 3865804 (18.32%) aligned concordantly 0 times 15185673 (71.97%) aligned concordantly exactly 1 time 2047539 (9.70%) aligned concordantly >1 times ---- 3865804 pairs aligned concordantly 0 times; of these: 568763 (14.71%) aligned discordantly 1 time ---- 3297041 pairs aligned 0 times concordantly or discordantly; of these: 6594082 mates make up the pairs; of these: 6175728 (93.66%) aligned 0 times 201313 (3.05%) aligned exactly 1 time 217041 (3.29%) aligned >1 times 85.36% overall alignment rate Time searching: 00:09:26 Overall time: 00:09:26 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 16 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] 282201 / 17724727 = 0.0159 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 15:32:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.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 15:32:37: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:32:37: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:32:42: 1000000 INFO @ Wed, 22 Jul 2020 15:32:48: 2000000 INFO @ Wed, 22 Jul 2020 15:32:54: 3000000 INFO @ Wed, 22 Jul 2020 15:33:00: 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 15:33:06: 5000000 INFO @ Wed, 22 Jul 2020 15:33:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.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 15:33:06: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:33:06: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:33:12: 1000000 INFO @ Wed, 22 Jul 2020 15:33:12: 6000000 INFO @ Wed, 22 Jul 2020 15:33:18: 2000000 INFO @ Wed, 22 Jul 2020 15:33:19: 7000000 INFO @ Wed, 22 Jul 2020 15:33:24: 3000000 INFO @ Wed, 22 Jul 2020 15:33:25: 8000000 INFO @ Wed, 22 Jul 2020 15:33:29: 4000000 INFO @ Wed, 22 Jul 2020 15:33:31: 9000000 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 15:33:35: 5000000 INFO @ Wed, 22 Jul 2020 15:33:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.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 15:33:37: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:33:37: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:33:37: 10000000 INFO @ Wed, 22 Jul 2020 15:33:40: 6000000 INFO @ Wed, 22 Jul 2020 15:33:43: 1000000 INFO @ Wed, 22 Jul 2020 15:33:43: 11000000 INFO @ Wed, 22 Jul 2020 15:33:46: 7000000 INFO @ Wed, 22 Jul 2020 15:33:49: 12000000 INFO @ Wed, 22 Jul 2020 15:33:49: 2000000 INFO @ Wed, 22 Jul 2020 15:33:52: 8000000 INFO @ Wed, 22 Jul 2020 15:33:55: 13000000 INFO @ Wed, 22 Jul 2020 15:33:56: 3000000 INFO @ Wed, 22 Jul 2020 15:33:57: 9000000 INFO @ Wed, 22 Jul 2020 15:34:02: 14000000 INFO @ Wed, 22 Jul 2020 15:34:02: 4000000 INFO @ Wed, 22 Jul 2020 15:34:03: 10000000 INFO @ Wed, 22 Jul 2020 15:34:08: 15000000 INFO @ Wed, 22 Jul 2020 15:34:08: 5000000 INFO @ Wed, 22 Jul 2020 15:34:08: 11000000 INFO @ Wed, 22 Jul 2020 15:34:14: 16000000 INFO @ Wed, 22 Jul 2020 15:34:14: 12000000 INFO @ Wed, 22 Jul 2020 15:34:15: 6000000 INFO @ Wed, 22 Jul 2020 15:34:20: 13000000 INFO @ Wed, 22 Jul 2020 15:34:20: 17000000 INFO @ Wed, 22 Jul 2020 15:34:21: 7000000 INFO @ Wed, 22 Jul 2020 15:34:25: 14000000 INFO @ Wed, 22 Jul 2020 15:34:26: 18000000 INFO @ Wed, 22 Jul 2020 15:34:27: 8000000 INFO @ Wed, 22 Jul 2020 15:34:31: 15000000 INFO @ Wed, 22 Jul 2020 15:34:33: 19000000 INFO @ Wed, 22 Jul 2020 15:34:33: 9000000 INFO @ Wed, 22 Jul 2020 15:34:37: 16000000 INFO @ Wed, 22 Jul 2020 15:34:39: 20000000 INFO @ Wed, 22 Jul 2020 15:34:39: 10000000 INFO @ Wed, 22 Jul 2020 15:34:42: 17000000 INFO @ Wed, 22 Jul 2020 15:34:45: 21000000 INFO @ Wed, 22 Jul 2020 15:34:45: 11000000 INFO @ Wed, 22 Jul 2020 15:34:48: 18000000 INFO @ Wed, 22 Jul 2020 15:34:51: 22000000 INFO @ Wed, 22 Jul 2020 15:34:51: 12000000 INFO @ Wed, 22 Jul 2020 15:34:54: 19000000 INFO @ Wed, 22 Jul 2020 15:34:57: 23000000 INFO @ Wed, 22 Jul 2020 15:34:58: 13000000 INFO @ Wed, 22 Jul 2020 15:34:59: 20000000 INFO @ Wed, 22 Jul 2020 15:35:03: 24000000 INFO @ Wed, 22 Jul 2020 15:35:04: 14000000 INFO @ Wed, 22 Jul 2020 15:35:05: 21000000 INFO @ Wed, 22 Jul 2020 15:35:09: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:35:11: 22000000 INFO @ Wed, 22 Jul 2020 15:35:11: 15000000 INFO @ Wed, 22 Jul 2020 15:35:16: 26000000 INFO @ Wed, 22 Jul 2020 15:35:16: 23000000 INFO @ Wed, 22 Jul 2020 15:35:17: 16000000 INFO @ Wed, 22 Jul 2020 15:35:22: 24000000 INFO @ Wed, 22 Jul 2020 15:35:22: 27000000 INFO @ Wed, 22 Jul 2020 15:35:23: 17000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:35:27: 25000000 INFO @ Wed, 22 Jul 2020 15:35:28: 28000000 INFO @ Wed, 22 Jul 2020 15:35:29: 18000000 INFO @ Wed, 22 Jul 2020 15:35:33: 26000000 INFO @ Wed, 22 Jul 2020 15:35:34: 29000000 INFO @ Wed, 22 Jul 2020 15:35:36: 19000000 INFO @ Wed, 22 Jul 2020 15:35:39: 27000000 INFO @ Wed, 22 Jul 2020 15:35:40: 30000000 INFO @ Wed, 22 Jul 2020 15:35:42: 20000000 INFO @ Wed, 22 Jul 2020 15:35:45: 28000000 INFO @ Wed, 22 Jul 2020 15:35:47: 31000000 INFO @ Wed, 22 Jul 2020 15:35:48: 21000000 INFO @ Wed, 22 Jul 2020 15:35:50: 29000000 INFO @ Wed, 22 Jul 2020 15:35:53: 32000000 INFO @ Wed, 22 Jul 2020 15:35:54: 22000000 INFO @ Wed, 22 Jul 2020 15:35:56: 30000000 INFO @ Wed, 22 Jul 2020 15:35:59: 33000000 INFO @ Wed, 22 Jul 2020 15:36:00: 23000000 INFO @ Wed, 22 Jul 2020 15:36:01: 31000000 INFO @ Wed, 22 Jul 2020 15:36:05: 34000000 INFO @ Wed, 22 Jul 2020 15:36:07: 24000000 INFO @ Wed, 22 Jul 2020 15:36:07: 32000000 INFO @ Wed, 22 Jul 2020 15:36:11: 35000000 INFO @ Wed, 22 Jul 2020 15:36:12: 33000000 INFO @ Wed, 22 Jul 2020 15:36:13: 25000000 INFO @ Wed, 22 Jul 2020 15:36:13: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:36:13: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:36:13: #1 total tags in treatment: 16953845 INFO @ Wed, 22 Jul 2020 15:36:13: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:36:13: #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 15:36:14: #1 tags after filtering in treatment: 11375138 INFO @ Wed, 22 Jul 2020 15:36:14: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Jul 2020 15:36:14: #1 finished! INFO @ Wed, 22 Jul 2020 15:36:14: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:36:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:36:14: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:36:14: 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 15:36:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.05_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/SRX8639459/SRX8639459.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:36:18: 34000000 INFO @ Wed, 22 Jul 2020 15:36:19: 26000000 INFO @ Wed, 22 Jul 2020 15:36:23: 35000000 INFO @ Wed, 22 Jul 2020 15:36:25: 27000000 INFO @ Wed, 22 Jul 2020 15:36:25: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:36:25: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:36:25: #1 total tags in treatment: 16953845 INFO @ Wed, 22 Jul 2020 15:36:25: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:36:25: #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 15:36:26: #1 tags after filtering in treatment: 11375138 INFO @ Wed, 22 Jul 2020 15:36:26: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Jul 2020 15:36:26: #1 finished! INFO @ Wed, 22 Jul 2020 15:36:26: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:36:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:36:26: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:36:26: 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 15:36:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.10_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/SRX8639459/SRX8639459.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:36:31: 28000000 INFO @ Wed, 22 Jul 2020 15:36:37: 29000000 INFO @ Wed, 22 Jul 2020 15:36:43: 30000000 INFO @ Wed, 22 Jul 2020 15:36:48: 31000000 INFO @ Wed, 22 Jul 2020 15:36:54: 32000000 INFO @ Wed, 22 Jul 2020 15:37:00: 33000000 INFO @ Wed, 22 Jul 2020 15:37:05: 34000000 INFO @ Wed, 22 Jul 2020 15:37:11: 35000000 INFO @ Wed, 22 Jul 2020 15:37:14: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:37:14: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:37:14: #1 total tags in treatment: 16953845 INFO @ Wed, 22 Jul 2020 15:37:14: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:37:14: #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 15:37:14: #1 tags after filtering in treatment: 11375138 INFO @ Wed, 22 Jul 2020 15:37:14: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Jul 2020 15:37:14: #1 finished! INFO @ Wed, 22 Jul 2020 15:37:14: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:37:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:37:15: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:37:15: 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 15:37:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.20_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/SRX8639459/SRX8639459.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639459/SRX8639459.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling