Job ID = 5791291 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 33,448,835 reads read : 66,897,670 reads written : 66,897,670 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:17:23 33448835 reads; of these: 33448835 (100.00%) were paired; of these: 846359 (2.53%) aligned concordantly 0 times 28848770 (86.25%) aligned concordantly exactly 1 time 3753706 (11.22%) aligned concordantly >1 times ---- 846359 pairs aligned concordantly 0 times; of these: 109992 (13.00%) aligned discordantly 1 time ---- 736367 pairs aligned 0 times concordantly or discordantly; of these: 1472734 mates make up the pairs; of these: 1221589 (82.95%) aligned 0 times 190899 (12.96%) aligned exactly 1 time 60246 (4.09%) aligned >1 times 98.17% overall alignment rate Time searching: 00:17:23 Overall time: 00:17:23 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 28 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] 10455766 / 32615478 = 0.3206 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 Apr 2020 10:08:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.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 Apr 2020 10:08:33: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:08:33: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:08:38: 1000000 INFO @ Wed, 22 Apr 2020 10:08:43: 2000000 INFO @ Wed, 22 Apr 2020 10:08:48: 3000000 INFO @ Wed, 22 Apr 2020 10:08:53: 4000000 INFO @ Wed, 22 Apr 2020 10:08:58: 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 Apr 2020 10:09:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.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 Apr 2020 10:09:01: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:09:01: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:09:03: 6000000 INFO @ Wed, 22 Apr 2020 10:09:07: 1000000 INFO @ Wed, 22 Apr 2020 10:09:09: 7000000 INFO @ Wed, 22 Apr 2020 10:09:13: 2000000 INFO @ Wed, 22 Apr 2020 10:09:14: 8000000 INFO @ Wed, 22 Apr 2020 10:09:18: 3000000 INFO @ Wed, 22 Apr 2020 10:09:20: 9000000 INFO @ Wed, 22 Apr 2020 10:09:24: 4000000 INFO @ Wed, 22 Apr 2020 10:09:26: 10000000 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 Apr 2020 10:09:30: 5000000 INFO @ Wed, 22 Apr 2020 10:09:31: 11000000 INFO @ Wed, 22 Apr 2020 10:09:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.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 Apr 2020 10:09:32: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:09:32: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:09:35: 6000000 INFO @ Wed, 22 Apr 2020 10:09:37: 12000000 INFO @ Wed, 22 Apr 2020 10:09:38: 1000000 INFO @ Wed, 22 Apr 2020 10:09:41: 7000000 INFO @ Wed, 22 Apr 2020 10:09:43: 13000000 INFO @ Wed, 22 Apr 2020 10:09:43: 2000000 INFO @ Wed, 22 Apr 2020 10:09:47: 8000000 INFO @ Wed, 22 Apr 2020 10:09:49: 14000000 INFO @ Wed, 22 Apr 2020 10:09:49: 3000000 INFO @ Wed, 22 Apr 2020 10:09:53: 9000000 INFO @ Wed, 22 Apr 2020 10:09:54: 15000000 INFO @ Wed, 22 Apr 2020 10:09:55: 4000000 INFO @ Wed, 22 Apr 2020 10:09:58: 10000000 INFO @ Wed, 22 Apr 2020 10:10:00: 16000000 INFO @ Wed, 22 Apr 2020 10:10:01: 5000000 INFO @ Wed, 22 Apr 2020 10:10:04: 11000000 INFO @ Wed, 22 Apr 2020 10:10:06: 17000000 INFO @ Wed, 22 Apr 2020 10:10:07: 6000000 INFO @ Wed, 22 Apr 2020 10:10:10: 12000000 INFO @ Wed, 22 Apr 2020 10:10:12: 18000000 INFO @ Wed, 22 Apr 2020 10:10:13: 7000000 INFO @ Wed, 22 Apr 2020 10:10:16: 13000000 INFO @ Wed, 22 Apr 2020 10:10:17: 19000000 INFO @ Wed, 22 Apr 2020 10:10:18: 8000000 INFO @ Wed, 22 Apr 2020 10:10:22: 14000000 INFO @ Wed, 22 Apr 2020 10:10:23: 20000000 INFO @ Wed, 22 Apr 2020 10:10:24: 9000000 INFO @ Wed, 22 Apr 2020 10:10:28: 15000000 INFO @ Wed, 22 Apr 2020 10:10:29: 21000000 INFO @ Wed, 22 Apr 2020 10:10:30: 10000000 INFO @ Wed, 22 Apr 2020 10:10:33: 16000000 INFO @ Wed, 22 Apr 2020 10:10:35: 22000000 INFO @ Wed, 22 Apr 2020 10:10:36: 11000000 INFO @ Wed, 22 Apr 2020 10:10:39: 17000000 INFO @ Wed, 22 Apr 2020 10:10:40: 23000000 INFO @ Wed, 22 Apr 2020 10:10:42: 12000000 INFO @ Wed, 22 Apr 2020 10:10:45: 18000000 INFO @ Wed, 22 Apr 2020 10:10:46: 24000000 INFO @ Wed, 22 Apr 2020 10:10:47: 13000000 INFO @ Wed, 22 Apr 2020 10:10:50: 19000000 INFO @ Wed, 22 Apr 2020 10:10:52: 25000000 INFO @ Wed, 22 Apr 2020 10:10:53: 14000000 INFO @ Wed, 22 Apr 2020 10:10:56: 20000000 INFO @ Wed, 22 Apr 2020 10:10:58: 26000000 INFO @ Wed, 22 Apr 2020 10:10:59: 15000000 INFO @ Wed, 22 Apr 2020 10:11:02: 21000000 INFO @ Wed, 22 Apr 2020 10:11:03: 27000000 INFO @ Wed, 22 Apr 2020 10:11:05: 16000000 INFO @ Wed, 22 Apr 2020 10:11:07: 22000000 INFO @ Wed, 22 Apr 2020 10:11:09: 28000000 INFO @ Wed, 22 Apr 2020 10:11:11: 17000000 INFO @ Wed, 22 Apr 2020 10:11:13: 23000000 INFO @ Wed, 22 Apr 2020 10:11:15: 29000000 INFO @ Wed, 22 Apr 2020 10:11:16: 18000000 INFO @ Wed, 22 Apr 2020 10:11:19: 24000000 INFO @ Wed, 22 Apr 2020 10:11:21: 30000000 INFO @ Wed, 22 Apr 2020 10:11:22: 19000000 INFO @ Wed, 22 Apr 2020 10:11:24: 25000000 INFO @ Wed, 22 Apr 2020 10:11:27: 31000000 INFO @ Wed, 22 Apr 2020 10:11:28: 20000000 INFO @ Wed, 22 Apr 2020 10:11:30: 26000000 INFO @ Wed, 22 Apr 2020 10:11:33: 32000000 INFO @ Wed, 22 Apr 2020 10:11:34: 21000000 INFO @ Wed, 22 Apr 2020 10:11:36: 27000000 INFO @ Wed, 22 Apr 2020 10:11:38: 33000000 INFO @ Wed, 22 Apr 2020 10:11:40: 22000000 INFO @ Wed, 22 Apr 2020 10:11:42: 28000000 INFO @ Wed, 22 Apr 2020 10:11:44: 34000000 INFO @ Wed, 22 Apr 2020 10:11:45: 23000000 INFO @ Wed, 22 Apr 2020 10:11:47: 29000000 INFO @ Wed, 22 Apr 2020 10:11:50: 35000000 INFO @ Wed, 22 Apr 2020 10:11:51: 24000000 INFO @ Wed, 22 Apr 2020 10:11:53: 30000000 INFO @ Wed, 22 Apr 2020 10:11:55: 36000000 INFO @ Wed, 22 Apr 2020 10:11:57: 25000000 INFO @ Wed, 22 Apr 2020 10:11:59: 31000000 INFO @ Wed, 22 Apr 2020 10:12:01: 37000000 INFO @ Wed, 22 Apr 2020 10:12:03: 26000000 INFO @ Wed, 22 Apr 2020 10:12:04: 32000000 INFO @ Wed, 22 Apr 2020 10:12:07: 38000000 INFO @ Wed, 22 Apr 2020 10:12:09: 27000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:12:10: 33000000 INFO @ Wed, 22 Apr 2020 10:12:13: 39000000 INFO @ Wed, 22 Apr 2020 10:12:15: 28000000 INFO @ Wed, 22 Apr 2020 10:12:16: 34000000 INFO @ Wed, 22 Apr 2020 10:12:19: 40000000 INFO @ Wed, 22 Apr 2020 10:12:21: 29000000 INFO @ Wed, 22 Apr 2020 10:12:22: 35000000 INFO @ Wed, 22 Apr 2020 10:12:25: 41000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:12:27: 30000000 INFO @ Wed, 22 Apr 2020 10:12:28: 36000000 INFO @ Wed, 22 Apr 2020 10:12:31: 42000000 INFO @ Wed, 22 Apr 2020 10:12:33: 31000000 INFO @ Wed, 22 Apr 2020 10:12:34: 37000000 INFO @ Wed, 22 Apr 2020 10:12:37: 43000000 INFO @ Wed, 22 Apr 2020 10:12:39: 32000000 INFO @ Wed, 22 Apr 2020 10:12:39: 38000000 INFO @ Wed, 22 Apr 2020 10:12:43: 44000000 INFO @ Wed, 22 Apr 2020 10:12:45: 33000000 INFO @ Wed, 22 Apr 2020 10:12:45: 39000000 INFO @ Wed, 22 Apr 2020 10:12:48: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:12:48: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:12:48: #1 total tags in treatment: 22151312 INFO @ Wed, 22 Apr 2020 10:12:48: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:12:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 10:12:48: #1 tags after filtering in treatment: 12995269 INFO @ Wed, 22 Apr 2020 10:12:48: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 10:12:48: #1 finished! INFO @ Wed, 22 Apr 2020 10:12:48: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:12:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:12:49: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:12:49: 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 Apr 2020 10:12:49: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 10:12:51: 34000000 INFO @ Wed, 22 Apr 2020 10:12:51: 40000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.05_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/SRX7409550/SRX7409550.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:12:57: 35000000 INFO @ Wed, 22 Apr 2020 10:12:57: 41000000 INFO @ Wed, 22 Apr 2020 10:13:02: 36000000 INFO @ Wed, 22 Apr 2020 10:13:03: 42000000 INFO @ Wed, 22 Apr 2020 10:13:08: 37000000 INFO @ Wed, 22 Apr 2020 10:13:08: 43000000 INFO @ Wed, 22 Apr 2020 10:13:14: 38000000 INFO @ Wed, 22 Apr 2020 10:13:14: 44000000 INFO @ Wed, 22 Apr 2020 10:13:19: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:13:19: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:13:19: #1 total tags in treatment: 22151312 INFO @ Wed, 22 Apr 2020 10:13:19: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:13:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 10:13:19: #1 tags after filtering in treatment: 12995269 INFO @ Wed, 22 Apr 2020 10:13:19: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 10:13:19: #1 finished! INFO @ Wed, 22 Apr 2020 10:13:19: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:13:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:13:20: 39000000 INFO @ Wed, 22 Apr 2020 10:13:20: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:13:20: 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 Apr 2020 10:13:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.10_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/SRX7409550/SRX7409550.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:13:25: 40000000 INFO @ Wed, 22 Apr 2020 10:13:30: 41000000 INFO @ Wed, 22 Apr 2020 10:13:36: 42000000 INFO @ Wed, 22 Apr 2020 10:13:41: 43000000 INFO @ Wed, 22 Apr 2020 10:13:47: 44000000 INFO @ Wed, 22 Apr 2020 10:13:51: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:13:51: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:13:51: #1 total tags in treatment: 22151312 INFO @ Wed, 22 Apr 2020 10:13:51: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:13:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 10:13:51: #1 tags after filtering in treatment: 12995269 INFO @ Wed, 22 Apr 2020 10:13:51: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 10:13:51: #1 finished! INFO @ Wed, 22 Apr 2020 10:13:51: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:13:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:13:52: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:13:52: 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 Apr 2020 10:13:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.20_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/SRX7409550/SRX7409550.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409550/SRX7409550.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling