Job ID = 7116085 SRX = SRX8639467 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:14:09 prefetch.2.10.7: 1) Downloading 'SRR12116967'... 2020-07-22T06:14:09 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:16:59 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:16:59 prefetch.2.10.7: 1) 'SRR12116967' was downloaded successfully 2020-07-22T06:16:59 prefetch.2.10.7: 'SRR12116967' has 0 unresolved dependencies Read 28616381 spots for SRR12116967/SRR12116967.sra Written 28616381 spots for SRR12116967/SRR12116967.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: 00:14:59 28616381 reads; of these: 28616381 (100.00%) were paired; of these: 6004326 (20.98%) aligned concordantly 0 times 19374057 (67.70%) aligned concordantly exactly 1 time 3237998 (11.32%) aligned concordantly >1 times ---- 6004326 pairs aligned concordantly 0 times; of these: 210437 (3.50%) aligned discordantly 1 time ---- 5793889 pairs aligned 0 times concordantly or discordantly; of these: 11587778 mates make up the pairs; of these: 11229057 (96.90%) aligned 0 times 240296 (2.07%) aligned exactly 1 time 118425 (1.02%) aligned >1 times 80.38% overall alignment rate Time searching: 00:14:59 Overall time: 00:14:59 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] 664434 / 22791108 = 0.0292 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 15:44:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.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 15:44:26: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:44:26: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:44:31: 1000000 INFO @ Wed, 22 Jul 2020 15:44:36: 2000000 INFO @ Wed, 22 Jul 2020 15:44:41: 3000000 INFO @ Wed, 22 Jul 2020 15:44:46: 4000000 INFO @ Wed, 22 Jul 2020 15:44:51: 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 15:44:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.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 15:44:56: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:44:56: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:44:56: 6000000 INFO @ Wed, 22 Jul 2020 15:45:01: 1000000 INFO @ Wed, 22 Jul 2020 15:45:01: 7000000 INFO @ Wed, 22 Jul 2020 15:45:06: 2000000 INFO @ Wed, 22 Jul 2020 15:45:07: 8000000 INFO @ Wed, 22 Jul 2020 15:45:12: 3000000 INFO @ Wed, 22 Jul 2020 15:45:12: 9000000 INFO @ Wed, 22 Jul 2020 15:45:17: 4000000 INFO @ Wed, 22 Jul 2020 15:45:17: 10000000 INFO @ Wed, 22 Jul 2020 15:45:22: 5000000 INFO @ Wed, 22 Jul 2020 15:45:22: 11000000 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 15:45:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.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 15:45:26: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:45:26: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:45:28: 6000000 INFO @ Wed, 22 Jul 2020 15:45:28: 12000000 INFO @ Wed, 22 Jul 2020 15:45:31: 1000000 INFO @ Wed, 22 Jul 2020 15:45:33: 13000000 INFO @ Wed, 22 Jul 2020 15:45:33: 7000000 INFO @ Wed, 22 Jul 2020 15:45:36: 2000000 INFO @ Wed, 22 Jul 2020 15:45:39: 14000000 INFO @ Wed, 22 Jul 2020 15:45:39: 8000000 INFO @ Wed, 22 Jul 2020 15:45:42: 3000000 INFO @ Wed, 22 Jul 2020 15:45:44: 15000000 INFO @ Wed, 22 Jul 2020 15:45:44: 9000000 INFO @ Wed, 22 Jul 2020 15:45:47: 4000000 INFO @ Wed, 22 Jul 2020 15:45:49: 16000000 INFO @ Wed, 22 Jul 2020 15:45:50: 10000000 INFO @ Wed, 22 Jul 2020 15:45:53: 5000000 INFO @ Wed, 22 Jul 2020 15:45:55: 17000000 INFO @ Wed, 22 Jul 2020 15:45:55: 11000000 INFO @ Wed, 22 Jul 2020 15:45:58: 6000000 INFO @ Wed, 22 Jul 2020 15:46:00: 18000000 INFO @ Wed, 22 Jul 2020 15:46:00: 12000000 INFO @ Wed, 22 Jul 2020 15:46:04: 7000000 INFO @ Wed, 22 Jul 2020 15:46:06: 19000000 INFO @ Wed, 22 Jul 2020 15:46:06: 13000000 INFO @ Wed, 22 Jul 2020 15:46:09: 8000000 INFO @ Wed, 22 Jul 2020 15:46:11: 20000000 INFO @ Wed, 22 Jul 2020 15:46:11: 14000000 INFO @ Wed, 22 Jul 2020 15:46:14: 9000000 INFO @ Wed, 22 Jul 2020 15:46:16: 21000000 INFO @ Wed, 22 Jul 2020 15:46:17: 15000000 INFO @ Wed, 22 Jul 2020 15:46:20: 10000000 INFO @ Wed, 22 Jul 2020 15:46:22: 22000000 INFO @ Wed, 22 Jul 2020 15:46:22: 16000000 INFO @ Wed, 22 Jul 2020 15:46:25: 11000000 INFO @ Wed, 22 Jul 2020 15:46:27: 23000000 INFO @ Wed, 22 Jul 2020 15:46:28: 17000000 INFO @ Wed, 22 Jul 2020 15:46:31: 12000000 INFO @ Wed, 22 Jul 2020 15:46:32: 24000000 INFO @ Wed, 22 Jul 2020 15:46:33: 18000000 INFO @ Wed, 22 Jul 2020 15:46:36: 13000000 INFO @ Wed, 22 Jul 2020 15:46:38: 25000000 INFO @ Wed, 22 Jul 2020 15:46:38: 19000000 INFO @ Wed, 22 Jul 2020 15:46:41: 14000000 INFO @ Wed, 22 Jul 2020 15:46:43: 26000000 INFO @ Wed, 22 Jul 2020 15:46:44: 20000000 INFO @ Wed, 22 Jul 2020 15:46:47: 15000000 INFO @ Wed, 22 Jul 2020 15:46:49: 27000000 INFO @ Wed, 22 Jul 2020 15:46:49: 21000000 INFO @ Wed, 22 Jul 2020 15:46:52: 16000000 INFO @ Wed, 22 Jul 2020 15:46:54: 28000000 INFO @ Wed, 22 Jul 2020 15:46:55: 22000000 INFO @ Wed, 22 Jul 2020 15:46:57: 17000000 INFO @ Wed, 22 Jul 2020 15:46:59: 29000000 INFO @ Wed, 22 Jul 2020 15:47:00: 23000000 INFO @ Wed, 22 Jul 2020 15:47:03: 18000000 INFO @ Wed, 22 Jul 2020 15:47:05: 30000000 INFO @ Wed, 22 Jul 2020 15:47:06: 24000000 INFO @ Wed, 22 Jul 2020 15:47:08: 19000000 INFO @ Wed, 22 Jul 2020 15:47:10: 31000000 INFO @ Wed, 22 Jul 2020 15:47:11: 25000000 INFO @ Wed, 22 Jul 2020 15:47:14: 20000000 INFO @ Wed, 22 Jul 2020 15:47:16: 32000000 INFO @ Wed, 22 Jul 2020 15:47:16: 26000000 INFO @ Wed, 22 Jul 2020 15:47:19: 21000000 INFO @ Wed, 22 Jul 2020 15:47:21: 33000000 INFO @ Wed, 22 Jul 2020 15:47:22: 27000000 INFO @ Wed, 22 Jul 2020 15:47:24: 22000000 INFO @ Wed, 22 Jul 2020 15:47:26: 34000000 INFO @ Wed, 22 Jul 2020 15:47:27: 28000000 INFO @ Wed, 22 Jul 2020 15:47:30: 23000000 INFO @ Wed, 22 Jul 2020 15:47:32: 35000000 INFO @ Wed, 22 Jul 2020 15:47:33: 29000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:47:35: 24000000 INFO @ Wed, 22 Jul 2020 15:47:37: 36000000 INFO @ Wed, 22 Jul 2020 15:47:38: 30000000 INFO @ Wed, 22 Jul 2020 15:47:40: 25000000 INFO @ Wed, 22 Jul 2020 15:47:42: 37000000 INFO @ Wed, 22 Jul 2020 15:47:44: 31000000 INFO @ Wed, 22 Jul 2020 15:47:46: 26000000 INFO @ Wed, 22 Jul 2020 15:47:48: 38000000 INFO @ Wed, 22 Jul 2020 15:47:49: 32000000 INFO @ Wed, 22 Jul 2020 15:47:51: 27000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:47:53: 39000000 INFO @ Wed, 22 Jul 2020 15:47:55: 33000000 INFO @ Wed, 22 Jul 2020 15:47:57: 28000000 INFO @ Wed, 22 Jul 2020 15:47:59: 40000000 INFO @ Wed, 22 Jul 2020 15:48:00: 34000000 INFO @ Wed, 22 Jul 2020 15:48:02: 29000000 INFO @ Wed, 22 Jul 2020 15:48:04: 41000000 INFO @ Wed, 22 Jul 2020 15:48:06: 35000000 INFO @ Wed, 22 Jul 2020 15:48:08: 30000000 INFO @ Wed, 22 Jul 2020 15:48:10: 42000000 INFO @ Wed, 22 Jul 2020 15:48:11: 36000000 INFO @ Wed, 22 Jul 2020 15:48:13: 31000000 INFO @ Wed, 22 Jul 2020 15:48:15: 43000000 INFO @ Wed, 22 Jul 2020 15:48:17: 37000000 INFO @ Wed, 22 Jul 2020 15:48:18: 32000000 INFO @ Wed, 22 Jul 2020 15:48:21: 44000000 INFO @ Wed, 22 Jul 2020 15:48:22: 38000000 INFO @ Wed, 22 Jul 2020 15:48:24: 33000000 INFO @ Wed, 22 Jul 2020 15:48:24: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:48:24: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:48:24: #1 total tags in treatment: 21947890 INFO @ Wed, 22 Jul 2020 15:48:24: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:48:24: #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 15:48:25: #1 tags after filtering in treatment: 13304515 INFO @ Wed, 22 Jul 2020 15:48:25: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 15:48:25: #1 finished! INFO @ Wed, 22 Jul 2020 15:48:25: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:48:25: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:48:26: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:48:26: 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 15:48:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.05_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/SRX8639467/SRX8639467.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:48:28: 39000000 INFO @ Wed, 22 Jul 2020 15:48:29: 34000000 INFO @ Wed, 22 Jul 2020 15:48:33: 40000000 INFO @ Wed, 22 Jul 2020 15:48:35: 35000000 INFO @ Wed, 22 Jul 2020 15:48:38: 41000000 INFO @ Wed, 22 Jul 2020 15:48:40: 36000000 INFO @ Wed, 22 Jul 2020 15:48:44: 42000000 INFO @ Wed, 22 Jul 2020 15:48:46: 37000000 INFO @ Wed, 22 Jul 2020 15:48:49: 43000000 INFO @ Wed, 22 Jul 2020 15:48:51: 38000000 INFO @ Wed, 22 Jul 2020 15:48:54: 44000000 INFO @ Wed, 22 Jul 2020 15:48:56: 39000000 INFO @ Wed, 22 Jul 2020 15:48:58: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:48:58: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:48:58: #1 total tags in treatment: 21947890 INFO @ Wed, 22 Jul 2020 15:48:58: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:48:58: #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 15:48:59: #1 tags after filtering in treatment: 13304515 INFO @ Wed, 22 Jul 2020 15:48:59: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 15:48:59: #1 finished! INFO @ Wed, 22 Jul 2020 15:48:59: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:48:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:49:00: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:49:00: 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 15:49:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.10_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/SRX8639467/SRX8639467.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:49:02: 40000000 INFO @ Wed, 22 Jul 2020 15:49:07: 41000000 INFO @ Wed, 22 Jul 2020 15:49:12: 42000000 INFO @ Wed, 22 Jul 2020 15:49:17: 43000000 INFO @ Wed, 22 Jul 2020 15:49:22: 44000000 INFO @ Wed, 22 Jul 2020 15:49:25: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:49:25: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:49:25: #1 total tags in treatment: 21947890 INFO @ Wed, 22 Jul 2020 15:49:25: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:49:25: #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 15:49:26: #1 tags after filtering in treatment: 13304515 INFO @ Wed, 22 Jul 2020 15:49:26: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 15:49:26: #1 finished! INFO @ Wed, 22 Jul 2020 15:49:26: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:49:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:49:26: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:49:26: 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 15:49:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.20_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/SRX8639467/SRX8639467.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639467/SRX8639467.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling