Job ID = 7117919 SRX = SRX8639559 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:53:12 prefetch.2.10.7: 1) Downloading 'SRR12116997'... 2020-07-22T06:53:12 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:55:58 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:55:58 prefetch.2.10.7: 1) 'SRR12116997' was downloaded successfully 2020-07-22T06:55:58 prefetch.2.10.7: 'SRR12116997' has 0 unresolved dependencies Read 31153009 spots for SRR12116997/SRR12116997.sra Written 31153009 spots for SRR12116997/SRR12116997.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: 00:14:04 31153009 reads; of these: 31153009 (100.00%) were paired; of these: 7858353 (25.23%) aligned concordantly 0 times 21280214 (68.31%) aligned concordantly exactly 1 time 2014442 (6.47%) aligned concordantly >1 times ---- 7858353 pairs aligned concordantly 0 times; of these: 485136 (6.17%) aligned discordantly 1 time ---- 7373217 pairs aligned 0 times concordantly or discordantly; of these: 14746434 mates make up the pairs; of these: 14378139 (97.50%) aligned 0 times 271763 (1.84%) aligned exactly 1 time 96532 (0.65%) aligned >1 times 76.92% overall alignment rate Time searching: 00:14:04 Overall time: 00:14:04 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] 308935 / 23733117 = 0.0130 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 16:21:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.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 16:21:58: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:21:58: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:22:03: 1000000 INFO @ Wed, 22 Jul 2020 16:22:07: 2000000 INFO @ Wed, 22 Jul 2020 16:22:11: 3000000 INFO @ Wed, 22 Jul 2020 16:22:15: 4000000 INFO @ Wed, 22 Jul 2020 16:22:19: 5000000 INFO @ Wed, 22 Jul 2020 16:22:23: 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 16:22:28: 7000000 INFO @ Wed, 22 Jul 2020 16:22:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.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 16:22:28: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:22:28: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:22:32: 8000000 INFO @ Wed, 22 Jul 2020 16:22:33: 1000000 INFO @ Wed, 22 Jul 2020 16:22:36: 9000000 INFO @ Wed, 22 Jul 2020 16:22:37: 2000000 INFO @ Wed, 22 Jul 2020 16:22:40: 10000000 INFO @ Wed, 22 Jul 2020 16:22:41: 3000000 INFO @ Wed, 22 Jul 2020 16:22:44: 11000000 INFO @ Wed, 22 Jul 2020 16:22:46: 4000000 INFO @ Wed, 22 Jul 2020 16:22:49: 12000000 INFO @ Wed, 22 Jul 2020 16:22:50: 5000000 INFO @ Wed, 22 Jul 2020 16:22:53: 13000000 INFO @ Wed, 22 Jul 2020 16:22:54: 6000000 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 16:22:57: 14000000 INFO @ Wed, 22 Jul 2020 16:22:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.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 16:22:58: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:22:58: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:22:59: 7000000 INFO @ Wed, 22 Jul 2020 16:23:01: 15000000 INFO @ Wed, 22 Jul 2020 16:23:03: 8000000 INFO @ Wed, 22 Jul 2020 16:23:04: 1000000 INFO @ Wed, 22 Jul 2020 16:23:06: 16000000 INFO @ Wed, 22 Jul 2020 16:23:08: 9000000 INFO @ Wed, 22 Jul 2020 16:23:09: 2000000 INFO @ Wed, 22 Jul 2020 16:23:10: 17000000 INFO @ Wed, 22 Jul 2020 16:23:12: 10000000 INFO @ Wed, 22 Jul 2020 16:23:14: 18000000 INFO @ Wed, 22 Jul 2020 16:23:15: 3000000 INFO @ Wed, 22 Jul 2020 16:23:17: 11000000 INFO @ Wed, 22 Jul 2020 16:23:18: 19000000 INFO @ Wed, 22 Jul 2020 16:23:21: 12000000 INFO @ Wed, 22 Jul 2020 16:23:23: 4000000 INFO @ Wed, 22 Jul 2020 16:23:23: 20000000 INFO @ Wed, 22 Jul 2020 16:23:26: 13000000 INFO @ Wed, 22 Jul 2020 16:23:27: 21000000 INFO @ Wed, 22 Jul 2020 16:23:30: 14000000 INFO @ Wed, 22 Jul 2020 16:23:30: 5000000 INFO @ Wed, 22 Jul 2020 16:23:31: 22000000 INFO @ Wed, 22 Jul 2020 16:23:35: 15000000 INFO @ Wed, 22 Jul 2020 16:23:36: 23000000 INFO @ Wed, 22 Jul 2020 16:23:37: 6000000 INFO @ Wed, 22 Jul 2020 16:23:40: 24000000 INFO @ Wed, 22 Jul 2020 16:23:41: 16000000 INFO @ Wed, 22 Jul 2020 16:23:42: 7000000 INFO @ Wed, 22 Jul 2020 16:23:44: 25000000 INFO @ Wed, 22 Jul 2020 16:23:46: 17000000 INFO @ Wed, 22 Jul 2020 16:23:47: 8000000 INFO @ Wed, 22 Jul 2020 16:23:49: 26000000 INFO @ Wed, 22 Jul 2020 16:23:52: 9000000 INFO @ Wed, 22 Jul 2020 16:23:52: 18000000 INFO @ Wed, 22 Jul 2020 16:23:53: 27000000 INFO @ Wed, 22 Jul 2020 16:23:57: 10000000 INFO @ Wed, 22 Jul 2020 16:23:57: 28000000 INFO @ Wed, 22 Jul 2020 16:23:58: 19000000 INFO @ Wed, 22 Jul 2020 16:24:02: 29000000 INFO @ Wed, 22 Jul 2020 16:24:02: 11000000 INFO @ Wed, 22 Jul 2020 16:24:04: 20000000 INFO @ Wed, 22 Jul 2020 16:24:06: 30000000 INFO @ Wed, 22 Jul 2020 16:24:07: 12000000 INFO @ Wed, 22 Jul 2020 16:24:09: 21000000 INFO @ Wed, 22 Jul 2020 16:24:10: 31000000 INFO @ Wed, 22 Jul 2020 16:24:12: 13000000 INFO @ Wed, 22 Jul 2020 16:24:15: 32000000 INFO @ Wed, 22 Jul 2020 16:24:15: 22000000 INFO @ Wed, 22 Jul 2020 16:24:17: 14000000 INFO @ Wed, 22 Jul 2020 16:24:19: 33000000 INFO @ Wed, 22 Jul 2020 16:24:21: 23000000 INFO @ Wed, 22 Jul 2020 16:24:22: 15000000 INFO @ Wed, 22 Jul 2020 16:24:24: 34000000 INFO @ Wed, 22 Jul 2020 16:24:26: 24000000 INFO @ Wed, 22 Jul 2020 16:24:28: 16000000 INFO @ Wed, 22 Jul 2020 16:24:29: 35000000 INFO @ Wed, 22 Jul 2020 16:24:31: 25000000 INFO @ Wed, 22 Jul 2020 16:24:33: 17000000 INFO @ Wed, 22 Jul 2020 16:24:34: 36000000 INFO @ Wed, 22 Jul 2020 16:24:37: 26000000 INFO @ Wed, 22 Jul 2020 16:24:38: 18000000 INFO @ Wed, 22 Jul 2020 16:24:38: 37000000 INFO @ Wed, 22 Jul 2020 16:24:42: 27000000 INFO @ Wed, 22 Jul 2020 16:24:43: 38000000 INFO @ Wed, 22 Jul 2020 16:24:43: 19000000 INFO @ Wed, 22 Jul 2020 16:24:47: 39000000 INFO @ Wed, 22 Jul 2020 16:24:47: 28000000 INFO @ Wed, 22 Jul 2020 16:24:48: 20000000 INFO @ Wed, 22 Jul 2020 16:24:51: 40000000 INFO @ Wed, 22 Jul 2020 16:24:51: 29000000 INFO @ Wed, 22 Jul 2020 16:24:54: 21000000 INFO @ Wed, 22 Jul 2020 16:24:56: 41000000 INFO @ Wed, 22 Jul 2020 16:24:56: 30000000 INFO @ Wed, 22 Jul 2020 16:25:01: 42000000 INFO @ Wed, 22 Jul 2020 16:25:01: 22000000 INFO @ Wed, 22 Jul 2020 16:25:02: 31000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:25:06: 43000000 INFO @ Wed, 22 Jul 2020 16:25:06: 32000000 INFO @ Wed, 22 Jul 2020 16:25:06: 23000000 INFO @ Wed, 22 Jul 2020 16:25:10: 44000000 INFO @ Wed, 22 Jul 2020 16:25:10: 33000000 INFO @ Wed, 22 Jul 2020 16:25:11: 24000000 INFO @ Wed, 22 Jul 2020 16:25:15: 34000000 INFO @ Wed, 22 Jul 2020 16:25:15: 45000000 INFO @ Wed, 22 Jul 2020 16:25:16: 25000000 INFO @ Wed, 22 Jul 2020 16:25:19: 35000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:25:20: 46000000 INFO @ Wed, 22 Jul 2020 16:25:21: 26000000 INFO @ Wed, 22 Jul 2020 16:25:24: 36000000 INFO @ Wed, 22 Jul 2020 16:25:25: 47000000 INFO @ Wed, 22 Jul 2020 16:25:27: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:25:27: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:25:27: #1 total tags in treatment: 22986133 INFO @ Wed, 22 Jul 2020 16:25:27: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:25:27: #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 16:25:27: 27000000 INFO @ Wed, 22 Jul 2020 16:25:27: #1 tags after filtering in treatment: 12400512 INFO @ Wed, 22 Jul 2020 16:25:27: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Jul 2020 16:25:27: #1 finished! INFO @ Wed, 22 Jul 2020 16:25:27: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:25:27: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:25:28: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:25:28: 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 16:25:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.05_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/SRX8639559/SRX8639559.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:25:28: 37000000 INFO @ Wed, 22 Jul 2020 16:25:32: 28000000 INFO @ Wed, 22 Jul 2020 16:25:33: 38000000 INFO @ Wed, 22 Jul 2020 16:25:37: 29000000 INFO @ Wed, 22 Jul 2020 16:25:37: 39000000 INFO @ Wed, 22 Jul 2020 16:25:41: 40000000 INFO @ Wed, 22 Jul 2020 16:25:42: 30000000 INFO @ Wed, 22 Jul 2020 16:25:46: 41000000 INFO @ Wed, 22 Jul 2020 16:25:47: 31000000 INFO @ Wed, 22 Jul 2020 16:25:50: 42000000 INFO @ Wed, 22 Jul 2020 16:25:52: 32000000 INFO @ Wed, 22 Jul 2020 16:25:54: 43000000 INFO @ Wed, 22 Jul 2020 16:25:57: 33000000 INFO @ Wed, 22 Jul 2020 16:25:59: 44000000 INFO @ Wed, 22 Jul 2020 16:26:02: 34000000 INFO @ Wed, 22 Jul 2020 16:26:03: 45000000 INFO @ Wed, 22 Jul 2020 16:26:07: 35000000 INFO @ Wed, 22 Jul 2020 16:26:07: 46000000 INFO @ Wed, 22 Jul 2020 16:26:12: 47000000 INFO @ Wed, 22 Jul 2020 16:26:12: 36000000 INFO @ Wed, 22 Jul 2020 16:26:13: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:26:13: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:26:13: #1 total tags in treatment: 22986133 INFO @ Wed, 22 Jul 2020 16:26:13: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:26:13: #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 16:26:14: #1 tags after filtering in treatment: 12400512 INFO @ Wed, 22 Jul 2020 16:26:14: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Jul 2020 16:26:14: #1 finished! INFO @ Wed, 22 Jul 2020 16:26:14: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:26:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:26:14: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:26:14: 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 16:26:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.10_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/SRX8639559/SRX8639559.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:26:17: 37000000 INFO @ Wed, 22 Jul 2020 16:26:22: 38000000 INFO @ Wed, 22 Jul 2020 16:26:27: 39000000 INFO @ Wed, 22 Jul 2020 16:26:32: 40000000 INFO @ Wed, 22 Jul 2020 16:26:37: 41000000 INFO @ Wed, 22 Jul 2020 16:26:42: 42000000 INFO @ Wed, 22 Jul 2020 16:26:47: 43000000 INFO @ Wed, 22 Jul 2020 16:26:52: 44000000 INFO @ Wed, 22 Jul 2020 16:26:57: 45000000 INFO @ Wed, 22 Jul 2020 16:27:02: 46000000 INFO @ Wed, 22 Jul 2020 16:27:07: 47000000 INFO @ Wed, 22 Jul 2020 16:27:08: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:27:08: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:27:08: #1 total tags in treatment: 22986133 INFO @ Wed, 22 Jul 2020 16:27:08: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:27:08: #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 16:27:09: #1 tags after filtering in treatment: 12400512 INFO @ Wed, 22 Jul 2020 16:27:09: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Jul 2020 16:27:09: #1 finished! INFO @ Wed, 22 Jul 2020 16:27:09: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:27:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:27:10: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:27:10: 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 16:27:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.20_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/SRX8639559/SRX8639559.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639559/SRX8639559.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling