Job ID = 7116152 SRX = SRX8639470 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:14:51 prefetch.2.10.7: 1) Downloading 'SRR12116970'... 2020-07-22T06:14:51 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:17:47 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:17:47 prefetch.2.10.7: 1) 'SRR12116970' was downloaded successfully 2020-07-22T06:17:47 prefetch.2.10.7: 'SRR12116970' has 0 unresolved dependencies Read 28569173 spots for SRR12116970/SRR12116970.sra Written 28569173 spots for SRR12116970/SRR12116970.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: 00:11:24 28569173 reads; of these: 28569173 (100.00%) were paired; of these: 7975860 (27.92%) aligned concordantly 0 times 18017695 (63.07%) aligned concordantly exactly 1 time 2575618 (9.02%) aligned concordantly >1 times ---- 7975860 pairs aligned concordantly 0 times; of these: 129629 (1.63%) aligned discordantly 1 time ---- 7846231 pairs aligned 0 times concordantly or discordantly; of these: 15692462 mates make up the pairs; of these: 15370168 (97.95%) aligned 0 times 233717 (1.49%) aligned exactly 1 time 88577 (0.56%) aligned >1 times 73.10% overall alignment rate Time searching: 00:11:24 Overall time: 00:11:24 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 20 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] 466187 / 20692009 = 0.0225 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 15:39:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.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 15:39:37: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:39:37: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:39:41: 1000000 INFO @ Wed, 22 Jul 2020 15:39:46: 2000000 INFO @ Wed, 22 Jul 2020 15:39:50: 3000000 INFO @ Wed, 22 Jul 2020 15:39:54: 4000000 INFO @ Wed, 22 Jul 2020 15:39:59: 5000000 INFO @ Wed, 22 Jul 2020 15:40:03: 6000000 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 15:40:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.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 15:40:07: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:40:07: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:40:07: 7000000 INFO @ Wed, 22 Jul 2020 15:40:11: 1000000 INFO @ Wed, 22 Jul 2020 15:40:12: 8000000 INFO @ Wed, 22 Jul 2020 15:40:16: 2000000 INFO @ Wed, 22 Jul 2020 15:40:16: 9000000 INFO @ Wed, 22 Jul 2020 15:40:21: 3000000 INFO @ Wed, 22 Jul 2020 15:40:21: 10000000 INFO @ Wed, 22 Jul 2020 15:40:25: 4000000 INFO @ Wed, 22 Jul 2020 15:40:25: 11000000 INFO @ Wed, 22 Jul 2020 15:40:30: 5000000 INFO @ Wed, 22 Jul 2020 15:40:30: 12000000 INFO @ Wed, 22 Jul 2020 15:40:34: 6000000 INFO @ Wed, 22 Jul 2020 15:40:34: 13000000 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 15:40:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.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 15:40:37: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:40:37: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:40:39: 7000000 INFO @ Wed, 22 Jul 2020 15:40:39: 14000000 INFO @ Wed, 22 Jul 2020 15:40:43: 1000000 INFO @ Wed, 22 Jul 2020 15:40:44: 8000000 INFO @ Wed, 22 Jul 2020 15:40:44: 15000000 INFO @ Wed, 22 Jul 2020 15:40:48: 2000000 INFO @ Wed, 22 Jul 2020 15:40:48: 9000000 INFO @ Wed, 22 Jul 2020 15:40:48: 16000000 INFO @ Wed, 22 Jul 2020 15:40:53: 10000000 INFO @ Wed, 22 Jul 2020 15:40:53: 17000000 INFO @ Wed, 22 Jul 2020 15:40:54: 3000000 INFO @ Wed, 22 Jul 2020 15:40:58: 11000000 INFO @ Wed, 22 Jul 2020 15:40:58: 18000000 INFO @ Wed, 22 Jul 2020 15:40:59: 4000000 INFO @ Wed, 22 Jul 2020 15:41:02: 12000000 INFO @ Wed, 22 Jul 2020 15:41:03: 19000000 INFO @ Wed, 22 Jul 2020 15:41:05: 5000000 INFO @ Wed, 22 Jul 2020 15:41:07: 13000000 INFO @ Wed, 22 Jul 2020 15:41:07: 20000000 INFO @ Wed, 22 Jul 2020 15:41:10: 6000000 INFO @ Wed, 22 Jul 2020 15:41:12: 14000000 INFO @ Wed, 22 Jul 2020 15:41:12: 21000000 INFO @ Wed, 22 Jul 2020 15:41:16: 7000000 INFO @ Wed, 22 Jul 2020 15:41:17: 22000000 INFO @ Wed, 22 Jul 2020 15:41:17: 15000000 INFO @ Wed, 22 Jul 2020 15:41:21: 8000000 INFO @ Wed, 22 Jul 2020 15:41:22: 23000000 INFO @ Wed, 22 Jul 2020 15:41:22: 16000000 INFO @ Wed, 22 Jul 2020 15:41:26: 24000000 INFO @ Wed, 22 Jul 2020 15:41:26: 17000000 INFO @ Wed, 22 Jul 2020 15:41:26: 9000000 INFO @ Wed, 22 Jul 2020 15:41:31: 25000000 INFO @ Wed, 22 Jul 2020 15:41:31: 18000000 INFO @ Wed, 22 Jul 2020 15:41:32: 10000000 INFO @ Wed, 22 Jul 2020 15:41:36: 19000000 INFO @ Wed, 22 Jul 2020 15:41:36: 26000000 INFO @ Wed, 22 Jul 2020 15:41:37: 11000000 INFO @ Wed, 22 Jul 2020 15:41:40: 20000000 INFO @ Wed, 22 Jul 2020 15:41:40: 27000000 INFO @ Wed, 22 Jul 2020 15:41:43: 12000000 INFO @ Wed, 22 Jul 2020 15:41:45: 21000000 INFO @ Wed, 22 Jul 2020 15:41:45: 28000000 INFO @ Wed, 22 Jul 2020 15:41:48: 13000000 INFO @ Wed, 22 Jul 2020 15:41:50: 22000000 INFO @ Wed, 22 Jul 2020 15:41:50: 29000000 INFO @ Wed, 22 Jul 2020 15:41:54: 14000000 INFO @ Wed, 22 Jul 2020 15:41:54: 23000000 INFO @ Wed, 22 Jul 2020 15:41:55: 30000000 INFO @ Wed, 22 Jul 2020 15:41:59: 15000000 INFO @ Wed, 22 Jul 2020 15:41:59: 24000000 INFO @ Wed, 22 Jul 2020 15:41:59: 31000000 INFO @ Wed, 22 Jul 2020 15:42:04: 25000000 INFO @ Wed, 22 Jul 2020 15:42:04: 32000000 INFO @ Wed, 22 Jul 2020 15:42:04: 16000000 INFO @ Wed, 22 Jul 2020 15:42:08: 26000000 INFO @ Wed, 22 Jul 2020 15:42:09: 33000000 INFO @ Wed, 22 Jul 2020 15:42:10: 17000000 INFO @ Wed, 22 Jul 2020 15:42:13: 27000000 INFO @ Wed, 22 Jul 2020 15:42:14: 34000000 INFO @ Wed, 22 Jul 2020 15:42:15: 18000000 INFO @ Wed, 22 Jul 2020 15:42:18: 28000000 INFO @ Wed, 22 Jul 2020 15:42:18: 35000000 INFO @ Wed, 22 Jul 2020 15:42:21: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:42:22: 29000000 INFO @ Wed, 22 Jul 2020 15:42:23: 36000000 INFO @ Wed, 22 Jul 2020 15:42:26: 20000000 INFO @ Wed, 22 Jul 2020 15:42:27: 30000000 INFO @ Wed, 22 Jul 2020 15:42:28: 37000000 INFO @ Wed, 22 Jul 2020 15:42:31: 21000000 INFO @ Wed, 22 Jul 2020 15:42:32: 31000000 INFO @ Wed, 22 Jul 2020 15:42:33: 38000000 INFO @ Wed, 22 Jul 2020 15:42:36: 32000000 INFO @ Wed, 22 Jul 2020 15:42:37: 22000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:42:37: 39000000 INFO @ Wed, 22 Jul 2020 15:42:41: 33000000 INFO @ Wed, 22 Jul 2020 15:42:42: 23000000 INFO @ Wed, 22 Jul 2020 15:42:42: 40000000 INFO @ Wed, 22 Jul 2020 15:42:46: 34000000 INFO @ Wed, 22 Jul 2020 15:42:46: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:42:46: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:42:46: #1 total tags in treatment: 20127219 INFO @ Wed, 22 Jul 2020 15:42:46: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:42:46: #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 15:42:47: #1 tags after filtering in treatment: 12712218 INFO @ Wed, 22 Jul 2020 15:42:47: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 15:42:47: #1 finished! INFO @ Wed, 22 Jul 2020 15:42:47: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:42:47: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:42:47: 24000000 INFO @ Wed, 22 Jul 2020 15:42:48: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:42:48: 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 15:42:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.05_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/SRX8639470/SRX8639470.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:42:51: 35000000 INFO @ Wed, 22 Jul 2020 15:42:53: 25000000 INFO @ Wed, 22 Jul 2020 15:42:56: 36000000 INFO @ Wed, 22 Jul 2020 15:42:58: 26000000 INFO @ Wed, 22 Jul 2020 15:43:00: 37000000 INFO @ Wed, 22 Jul 2020 15:43:04: 27000000 INFO @ Wed, 22 Jul 2020 15:43:05: 38000000 INFO @ Wed, 22 Jul 2020 15:43:09: 28000000 INFO @ Wed, 22 Jul 2020 15:43:10: 39000000 INFO @ Wed, 22 Jul 2020 15:43:14: 40000000 INFO @ Wed, 22 Jul 2020 15:43:14: 29000000 INFO @ Wed, 22 Jul 2020 15:43:18: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:43:18: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:43:18: #1 total tags in treatment: 20127219 INFO @ Wed, 22 Jul 2020 15:43:18: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:43:18: #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 15:43:19: #1 tags after filtering in treatment: 12712218 INFO @ Wed, 22 Jul 2020 15:43:19: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 15:43:19: #1 finished! INFO @ Wed, 22 Jul 2020 15:43:19: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:43:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:43:19: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:43:19: 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 15:43:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.10_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/SRX8639470/SRX8639470.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:43:20: 30000000 INFO @ Wed, 22 Jul 2020 15:43:25: 31000000 INFO @ Wed, 22 Jul 2020 15:43:30: 32000000 INFO @ Wed, 22 Jul 2020 15:43:36: 33000000 INFO @ Wed, 22 Jul 2020 15:43:41: 34000000 INFO @ Wed, 22 Jul 2020 15:43:46: 35000000 INFO @ Wed, 22 Jul 2020 15:43:52: 36000000 INFO @ Wed, 22 Jul 2020 15:43:57: 37000000 INFO @ Wed, 22 Jul 2020 15:44:02: 38000000 INFO @ Wed, 22 Jul 2020 15:44:07: 39000000 INFO @ Wed, 22 Jul 2020 15:44:13: 40000000 INFO @ Wed, 22 Jul 2020 15:44:17: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:44:17: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:44:17: #1 total tags in treatment: 20127219 INFO @ Wed, 22 Jul 2020 15:44:17: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:44:17: #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 15:44:17: #1 tags after filtering in treatment: 12712218 INFO @ Wed, 22 Jul 2020 15:44:17: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 15:44:17: #1 finished! INFO @ Wed, 22 Jul 2020 15:44:17: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:44:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:44:18: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:44:18: 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 15:44:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.20_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/SRX8639470/SRX8639470.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639470/SRX8639470.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling