Job ID = 7117357 SRX = SRX8639500 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:37:21 prefetch.2.10.7: 1) Downloading 'SRR12117064'... 2020-07-22T06:37:22 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:41:37 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:41:37 prefetch.2.10.7: 1) 'SRR12117064' was downloaded successfully 2020-07-22T06:41:37 prefetch.2.10.7: 'SRR12117064' has 0 unresolved dependencies Read 28247895 spots for SRR12117064/SRR12117064.sra Written 28247895 spots for SRR12117064/SRR12117064.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: 00:13:38 28247895 reads; of these: 28247895 (100.00%) were paired; of these: 3718831 (13.16%) aligned concordantly 0 times 21326310 (75.50%) aligned concordantly exactly 1 time 3202754 (11.34%) aligned concordantly >1 times ---- 3718831 pairs aligned concordantly 0 times; of these: 397394 (10.69%) aligned discordantly 1 time ---- 3321437 pairs aligned 0 times concordantly or discordantly; of these: 6642874 mates make up the pairs; of these: 6094722 (91.75%) aligned 0 times 357767 (5.39%) aligned exactly 1 time 190385 (2.87%) aligned >1 times 89.21% overall alignment rate Time searching: 00:13:38 Overall time: 00:13:38 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] 643373 / 24756500 = 0.0260 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 16:07:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.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 16:07:38: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:07:38: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:07:43: 1000000 INFO @ Wed, 22 Jul 2020 16:07:49: 2000000 INFO @ Wed, 22 Jul 2020 16:07:54: 3000000 INFO @ Wed, 22 Jul 2020 16:07:59: 4000000 INFO @ Wed, 22 Jul 2020 16:08:05: 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 16:08:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.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 16:08:08: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:08:08: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:08:10: 6000000 INFO @ Wed, 22 Jul 2020 16:08:17: 7000000 INFO @ Wed, 22 Jul 2020 16:08:18: 1000000 INFO @ Wed, 22 Jul 2020 16:08:23: 8000000 INFO @ Wed, 22 Jul 2020 16:08:28: 2000000 INFO @ Wed, 22 Jul 2020 16:08:30: 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 16:08:37: 10000000 INFO @ Wed, 22 Jul 2020 16:08:37: 3000000 INFO @ Wed, 22 Jul 2020 16:08:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.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 16:08:38: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:08:38: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:08:44: 11000000 INFO @ Wed, 22 Jul 2020 16:08:45: 1000000 INFO @ Wed, 22 Jul 2020 16:08:47: 4000000 INFO @ Wed, 22 Jul 2020 16:08:51: 12000000 INFO @ Wed, 22 Jul 2020 16:08:53: 2000000 INFO @ Wed, 22 Jul 2020 16:08:56: 5000000 INFO @ Wed, 22 Jul 2020 16:08:58: 13000000 INFO @ Wed, 22 Jul 2020 16:09:00: 3000000 INFO @ Wed, 22 Jul 2020 16:09:05: 14000000 INFO @ Wed, 22 Jul 2020 16:09:06: 6000000 INFO @ Wed, 22 Jul 2020 16:09:06: 4000000 INFO @ Wed, 22 Jul 2020 16:09:12: 15000000 INFO @ Wed, 22 Jul 2020 16:09:14: 5000000 INFO @ Wed, 22 Jul 2020 16:09:16: 7000000 INFO @ Wed, 22 Jul 2020 16:09:19: 16000000 INFO @ Wed, 22 Jul 2020 16:09:20: 6000000 INFO @ Wed, 22 Jul 2020 16:09:25: 8000000 INFO @ Wed, 22 Jul 2020 16:09:26: 17000000 INFO @ Wed, 22 Jul 2020 16:09:28: 7000000 INFO @ Wed, 22 Jul 2020 16:09:33: 18000000 INFO @ Wed, 22 Jul 2020 16:09:35: 8000000 INFO @ Wed, 22 Jul 2020 16:09:35: 9000000 INFO @ Wed, 22 Jul 2020 16:09:40: 19000000 INFO @ Wed, 22 Jul 2020 16:09:42: 9000000 INFO @ Wed, 22 Jul 2020 16:09:45: 10000000 INFO @ Wed, 22 Jul 2020 16:09:47: 20000000 INFO @ Wed, 22 Jul 2020 16:09:49: 10000000 INFO @ Wed, 22 Jul 2020 16:09:54: 21000000 INFO @ Wed, 22 Jul 2020 16:09:55: 11000000 INFO @ Wed, 22 Jul 2020 16:09:56: 11000000 INFO @ Wed, 22 Jul 2020 16:10:01: 22000000 INFO @ Wed, 22 Jul 2020 16:10:04: 12000000 INFO @ Wed, 22 Jul 2020 16:10:05: 12000000 INFO @ Wed, 22 Jul 2020 16:10:08: 23000000 INFO @ Wed, 22 Jul 2020 16:10:11: 13000000 INFO @ Wed, 22 Jul 2020 16:10:14: 13000000 INFO @ Wed, 22 Jul 2020 16:10:15: 24000000 INFO @ Wed, 22 Jul 2020 16:10:18: 14000000 INFO @ Wed, 22 Jul 2020 16:10:22: 25000000 INFO @ Wed, 22 Jul 2020 16:10:24: 14000000 INFO @ Wed, 22 Jul 2020 16:10:25: 15000000 INFO @ Wed, 22 Jul 2020 16:10:28: 26000000 INFO @ Wed, 22 Jul 2020 16:10:32: 16000000 INFO @ Wed, 22 Jul 2020 16:10:34: 15000000 INFO @ Wed, 22 Jul 2020 16:10:35: 27000000 INFO @ Wed, 22 Jul 2020 16:10:39: 17000000 INFO @ Wed, 22 Jul 2020 16:10:43: 28000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:10:44: 16000000 INFO @ Wed, 22 Jul 2020 16:10:46: 18000000 INFO @ Wed, 22 Jul 2020 16:10:50: 29000000 INFO @ Wed, 22 Jul 2020 16:10:53: 17000000 INFO @ Wed, 22 Jul 2020 16:10:53: 19000000 INFO @ Wed, 22 Jul 2020 16:10:57: 30000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:11:00: 20000000 INFO @ Wed, 22 Jul 2020 16:11:03: 18000000 INFO @ Wed, 22 Jul 2020 16:11:04: 31000000 INFO @ Wed, 22 Jul 2020 16:11:07: 21000000 INFO @ Wed, 22 Jul 2020 16:11:10: 32000000 INFO @ Wed, 22 Jul 2020 16:11:12: 19000000 INFO @ Wed, 22 Jul 2020 16:11:14: 22000000 INFO @ Wed, 22 Jul 2020 16:11:18: 33000000 INFO @ Wed, 22 Jul 2020 16:11:21: 23000000 INFO @ Wed, 22 Jul 2020 16:11:22: 20000000 INFO @ Wed, 22 Jul 2020 16:11:25: 34000000 INFO @ Wed, 22 Jul 2020 16:11:28: 24000000 INFO @ Wed, 22 Jul 2020 16:11:32: 21000000 INFO @ Wed, 22 Jul 2020 16:11:32: 35000000 INFO @ Wed, 22 Jul 2020 16:11:35: 25000000 INFO @ Wed, 22 Jul 2020 16:11:39: 36000000 INFO @ Wed, 22 Jul 2020 16:11:41: 22000000 INFO @ Wed, 22 Jul 2020 16:11:42: 26000000 INFO @ Wed, 22 Jul 2020 16:11:46: 37000000 INFO @ Wed, 22 Jul 2020 16:11:49: 27000000 INFO @ Wed, 22 Jul 2020 16:11:50: 23000000 INFO @ Wed, 22 Jul 2020 16:11:52: 38000000 INFO @ Wed, 22 Jul 2020 16:11:56: 28000000 INFO @ Wed, 22 Jul 2020 16:11:59: 39000000 INFO @ Wed, 22 Jul 2020 16:11:59: 24000000 INFO @ Wed, 22 Jul 2020 16:12:03: 29000000 INFO @ Wed, 22 Jul 2020 16:12:06: 40000000 INFO @ Wed, 22 Jul 2020 16:12:08: 25000000 INFO @ Wed, 22 Jul 2020 16:12:10: 30000000 INFO @ Wed, 22 Jul 2020 16:12:13: 41000000 INFO @ Wed, 22 Jul 2020 16:12:17: 31000000 INFO @ Wed, 22 Jul 2020 16:12:17: 26000000 INFO @ Wed, 22 Jul 2020 16:12:20: 42000000 INFO @ Wed, 22 Jul 2020 16:12:24: 32000000 INFO @ Wed, 22 Jul 2020 16:12:27: 27000000 INFO @ Wed, 22 Jul 2020 16:12:27: 43000000 INFO @ Wed, 22 Jul 2020 16:12:31: 33000000 INFO @ Wed, 22 Jul 2020 16:12:34: 44000000 INFO @ Wed, 22 Jul 2020 16:12:37: 28000000 INFO @ Wed, 22 Jul 2020 16:12:38: 34000000 INFO @ Wed, 22 Jul 2020 16:12:40: 45000000 INFO @ Wed, 22 Jul 2020 16:12:45: 35000000 INFO @ Wed, 22 Jul 2020 16:12:46: 29000000 INFO @ Wed, 22 Jul 2020 16:12:47: 46000000 INFO @ Wed, 22 Jul 2020 16:12:52: 36000000 INFO @ Wed, 22 Jul 2020 16:12:54: 47000000 INFO @ Wed, 22 Jul 2020 16:12:56: 30000000 INFO @ Wed, 22 Jul 2020 16:12:59: 37000000 INFO @ Wed, 22 Jul 2020 16:13:02: 48000000 INFO @ Wed, 22 Jul 2020 16:13:06: 31000000 INFO @ Wed, 22 Jul 2020 16:13:06: 38000000 INFO @ Wed, 22 Jul 2020 16:13:09: 49000000 INFO @ Wed, 22 Jul 2020 16:13:09: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:13:09: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:13:09: #1 total tags in treatment: 23886432 INFO @ Wed, 22 Jul 2020 16:13:09: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:13:09: #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 16:13:10: #1 tags after filtering in treatment: 14097626 INFO @ Wed, 22 Jul 2020 16:13:10: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Jul 2020 16:13:10: #1 finished! INFO @ Wed, 22 Jul 2020 16:13:10: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:13:10: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:13:11: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:13:11: 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 16:13:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.05_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/SRX8639500/SRX8639500.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:13:13: 39000000 INFO @ Wed, 22 Jul 2020 16:13:16: 32000000 INFO @ Wed, 22 Jul 2020 16:13:19: 40000000 INFO @ Wed, 22 Jul 2020 16:13:26: 33000000 INFO @ Wed, 22 Jul 2020 16:13:26: 41000000 INFO @ Wed, 22 Jul 2020 16:13:32: 42000000 INFO @ Wed, 22 Jul 2020 16:13:36: 34000000 INFO @ Wed, 22 Jul 2020 16:13:39: 43000000 INFO @ Wed, 22 Jul 2020 16:13:45: 44000000 INFO @ Wed, 22 Jul 2020 16:13:45: 35000000 INFO @ Wed, 22 Jul 2020 16:13:52: 45000000 INFO @ Wed, 22 Jul 2020 16:13:55: 36000000 INFO @ Wed, 22 Jul 2020 16:13:58: 46000000 INFO @ Wed, 22 Jul 2020 16:14:04: 37000000 INFO @ Wed, 22 Jul 2020 16:14:05: 47000000 INFO @ Wed, 22 Jul 2020 16:14:11: 48000000 INFO @ Wed, 22 Jul 2020 16:14:13: 38000000 INFO @ Wed, 22 Jul 2020 16:14:18: 49000000 INFO @ Wed, 22 Jul 2020 16:14:19: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:14:19: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:14:19: #1 total tags in treatment: 23886432 INFO @ Wed, 22 Jul 2020 16:14:19: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:14:19: #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 16:14:19: #1 tags after filtering in treatment: 14097626 INFO @ Wed, 22 Jul 2020 16:14:19: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Jul 2020 16:14:19: #1 finished! INFO @ Wed, 22 Jul 2020 16:14:19: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:14:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:14:20: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:14:20: 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 16:14:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.20_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/SRX8639500/SRX8639500.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:14:22: 39000000 INFO @ Wed, 22 Jul 2020 16:14:30: 40000000 INFO @ Wed, 22 Jul 2020 16:14:39: 41000000 INFO @ Wed, 22 Jul 2020 16:14:48: 42000000 INFO @ Wed, 22 Jul 2020 16:14:57: 43000000 INFO @ Wed, 22 Jul 2020 16:15:06: 44000000 INFO @ Wed, 22 Jul 2020 16:15:14: 45000000 INFO @ Wed, 22 Jul 2020 16:15:23: 46000000 INFO @ Wed, 22 Jul 2020 16:15:31: 47000000 INFO @ Wed, 22 Jul 2020 16:15:39: 48000000 INFO @ Wed, 22 Jul 2020 16:15:48: 49000000 INFO @ Wed, 22 Jul 2020 16:15:49: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:15:49: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:15:49: #1 total tags in treatment: 23886432 INFO @ Wed, 22 Jul 2020 16:15:49: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:15:49: #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 16:15:49: #1 tags after filtering in treatment: 14097626 INFO @ Wed, 22 Jul 2020 16:15:49: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Jul 2020 16:15:49: #1 finished! INFO @ Wed, 22 Jul 2020 16:15:49: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:15:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:15:50: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:15:50: 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 16:15:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.10_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/SRX8639500/SRX8639500.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639500/SRX8639500.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling