Job ID = 5791302 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 29,919,763 reads read : 59,839,526 reads written : 59,839,526 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: 00:15:17 29919763 reads; of these: 29919763 (100.00%) were paired; of these: 484591 (1.62%) aligned concordantly 0 times 25785695 (86.18%) aligned concordantly exactly 1 time 3649477 (12.20%) aligned concordantly >1 times ---- 484591 pairs aligned concordantly 0 times; of these: 50490 (10.42%) aligned discordantly 1 time ---- 434101 pairs aligned 0 times concordantly or discordantly; of these: 868202 mates make up the pairs; of these: 709814 (81.76%) aligned 0 times 115312 (13.28%) aligned exactly 1 time 43076 (4.96%) aligned >1 times 98.81% overall alignment rate Time searching: 00:15:17 Overall time: 00:15:17 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] 8096176 / 29442076 = 0.2750 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 10:07:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.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 10:07:43: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:07:43: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:07:48: 1000000 INFO @ Wed, 22 Apr 2020 10:07:54: 2000000 INFO @ Wed, 22 Apr 2020 10:08:00: 3000000 INFO @ Wed, 22 Apr 2020 10:08:06: 4000000 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 10:08:12: 5000000 INFO @ Wed, 22 Apr 2020 10:08:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.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 10:08:12: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:08:12: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:08:18: 6000000 INFO @ Wed, 22 Apr 2020 10:08:19: 1000000 INFO @ Wed, 22 Apr 2020 10:08:24: 7000000 INFO @ Wed, 22 Apr 2020 10:08:25: 2000000 INFO @ Wed, 22 Apr 2020 10:08:30: 8000000 INFO @ Wed, 22 Apr 2020 10:08:30: 3000000 INFO @ Wed, 22 Apr 2020 10:08:36: 4000000 INFO @ Wed, 22 Apr 2020 10:08:36: 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 Apr 2020 10:08:42: 5000000 INFO @ Wed, 22 Apr 2020 10:08:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.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 10:08:42: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:08:42: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:08:42: 10000000 INFO @ Wed, 22 Apr 2020 10:08:48: 6000000 INFO @ Wed, 22 Apr 2020 10:08:48: 1000000 INFO @ Wed, 22 Apr 2020 10:08:49: 11000000 INFO @ Wed, 22 Apr 2020 10:08:54: 7000000 INFO @ Wed, 22 Apr 2020 10:08:55: 12000000 INFO @ Wed, 22 Apr 2020 10:08:57: 2000000 INFO @ Wed, 22 Apr 2020 10:09:00: 8000000 INFO @ Wed, 22 Apr 2020 10:09:01: 13000000 INFO @ Wed, 22 Apr 2020 10:09:05: 3000000 INFO @ Wed, 22 Apr 2020 10:09:06: 9000000 INFO @ Wed, 22 Apr 2020 10:09:07: 14000000 INFO @ Wed, 22 Apr 2020 10:09:12: 10000000 INFO @ Wed, 22 Apr 2020 10:09:13: 15000000 INFO @ Wed, 22 Apr 2020 10:09:13: 4000000 INFO @ Wed, 22 Apr 2020 10:09:18: 11000000 INFO @ Wed, 22 Apr 2020 10:09:20: 16000000 INFO @ Wed, 22 Apr 2020 10:09:22: 5000000 INFO @ Wed, 22 Apr 2020 10:09:24: 12000000 INFO @ Wed, 22 Apr 2020 10:09:26: 17000000 INFO @ Wed, 22 Apr 2020 10:09:30: 13000000 INFO @ Wed, 22 Apr 2020 10:09:30: 6000000 INFO @ Wed, 22 Apr 2020 10:09:32: 18000000 INFO @ Wed, 22 Apr 2020 10:09:37: 14000000 INFO @ Wed, 22 Apr 2020 10:09:38: 19000000 INFO @ Wed, 22 Apr 2020 10:09:39: 7000000 INFO @ Wed, 22 Apr 2020 10:09:43: 15000000 INFO @ Wed, 22 Apr 2020 10:09:44: 20000000 INFO @ Wed, 22 Apr 2020 10:09:47: 8000000 INFO @ Wed, 22 Apr 2020 10:09:49: 16000000 INFO @ Wed, 22 Apr 2020 10:09:50: 21000000 INFO @ Wed, 22 Apr 2020 10:09:55: 17000000 INFO @ Wed, 22 Apr 2020 10:09:56: 9000000 INFO @ Wed, 22 Apr 2020 10:09:57: 22000000 INFO @ Wed, 22 Apr 2020 10:10:02: 18000000 INFO @ Wed, 22 Apr 2020 10:10:03: 23000000 INFO @ Wed, 22 Apr 2020 10:10:05: 10000000 INFO @ Wed, 22 Apr 2020 10:10:08: 19000000 INFO @ Wed, 22 Apr 2020 10:10:09: 24000000 INFO @ Wed, 22 Apr 2020 10:10:13: 11000000 INFO @ Wed, 22 Apr 2020 10:10:14: 20000000 INFO @ Wed, 22 Apr 2020 10:10:16: 25000000 INFO @ Wed, 22 Apr 2020 10:10:20: 21000000 INFO @ Wed, 22 Apr 2020 10:10:22: 12000000 INFO @ Wed, 22 Apr 2020 10:10:22: 26000000 INFO @ Wed, 22 Apr 2020 10:10:26: 22000000 INFO @ Wed, 22 Apr 2020 10:10:28: 27000000 INFO @ Wed, 22 Apr 2020 10:10:31: 13000000 INFO @ Wed, 22 Apr 2020 10:10:33: 23000000 INFO @ Wed, 22 Apr 2020 10:10:35: 28000000 INFO @ Wed, 22 Apr 2020 10:10:39: 24000000 INFO @ Wed, 22 Apr 2020 10:10:40: 14000000 INFO @ Wed, 22 Apr 2020 10:10:41: 29000000 INFO @ Wed, 22 Apr 2020 10:10:46: 25000000 INFO @ Wed, 22 Apr 2020 10:10:47: 30000000 INFO @ Wed, 22 Apr 2020 10:10:48: 15000000 INFO @ Wed, 22 Apr 2020 10:10:52: 26000000 INFO @ Wed, 22 Apr 2020 10:10:54: 31000000 INFO @ Wed, 22 Apr 2020 10:10:57: 16000000 INFO @ Wed, 22 Apr 2020 10:10:59: 27000000 INFO @ Wed, 22 Apr 2020 10:11:00: 32000000 INFO @ Wed, 22 Apr 2020 10:11:05: 28000000 INFO @ Wed, 22 Apr 2020 10:11:06: 17000000 INFO @ Wed, 22 Apr 2020 10:11:06: 33000000 INFO @ Wed, 22 Apr 2020 10:11:12: 29000000 INFO @ Wed, 22 Apr 2020 10:11:12: 34000000 INFO @ Wed, 22 Apr 2020 10:11:15: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:11:18: 30000000 INFO @ Wed, 22 Apr 2020 10:11:19: 35000000 INFO @ Wed, 22 Apr 2020 10:11:23: 19000000 INFO @ Wed, 22 Apr 2020 10:11:24: 31000000 INFO @ Wed, 22 Apr 2020 10:11:25: 36000000 INFO @ Wed, 22 Apr 2020 10:11:31: 32000000 INFO @ Wed, 22 Apr 2020 10:11:31: 37000000 INFO @ Wed, 22 Apr 2020 10:11:32: 20000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:11:37: 33000000 INFO @ Wed, 22 Apr 2020 10:11:37: 38000000 INFO @ Wed, 22 Apr 2020 10:11:41: 21000000 INFO @ Wed, 22 Apr 2020 10:11:44: 39000000 INFO @ Wed, 22 Apr 2020 10:11:44: 34000000 INFO @ Wed, 22 Apr 2020 10:11:50: 22000000 INFO @ Wed, 22 Apr 2020 10:11:50: 40000000 INFO @ Wed, 22 Apr 2020 10:11:50: 35000000 INFO @ Wed, 22 Apr 2020 10:11:56: 41000000 INFO @ Wed, 22 Apr 2020 10:11:57: 36000000 INFO @ Wed, 22 Apr 2020 10:11:58: 23000000 INFO @ Wed, 22 Apr 2020 10:12:02: 42000000 INFO @ Wed, 22 Apr 2020 10:12:03: 37000000 INFO @ Wed, 22 Apr 2020 10:12:07: 24000000 INFO @ Wed, 22 Apr 2020 10:12:08: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:12:08: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:12:08: #1 total tags in treatment: 21340370 INFO @ Wed, 22 Apr 2020 10:12:08: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:12:08: #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 10:12:09: #1 tags after filtering in treatment: 12907075 INFO @ Wed, 22 Apr 2020 10:12:09: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Apr 2020 10:12:09: #1 finished! INFO @ Wed, 22 Apr 2020 10:12:09: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:12:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:12:09: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:12:09: 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 10:12:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:12:09: 38000000 INFO @ Wed, 22 Apr 2020 10:12:15: 39000000 INFO @ Wed, 22 Apr 2020 10:12:15: 25000000 INFO @ Wed, 22 Apr 2020 10:12:20: 40000000 INFO @ Wed, 22 Apr 2020 10:12:25: 26000000 INFO @ Wed, 22 Apr 2020 10:12:26: 41000000 INFO @ Wed, 22 Apr 2020 10:12:31: 42000000 INFO @ Wed, 22 Apr 2020 10:12:34: 27000000 INFO @ Wed, 22 Apr 2020 10:12:36: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:12:36: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:12:36: #1 total tags in treatment: 21340370 INFO @ Wed, 22 Apr 2020 10:12:36: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:12:36: #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 10:12:37: #1 tags after filtering in treatment: 12907075 INFO @ Wed, 22 Apr 2020 10:12:37: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Apr 2020 10:12:37: #1 finished! INFO @ Wed, 22 Apr 2020 10:12:37: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:12:37: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:12:37: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:12:37: 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 10:12:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.10_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/SRX7409559/SRX7409559.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:12:43: 28000000 INFO @ Wed, 22 Apr 2020 10:12:51: 29000000 INFO @ Wed, 22 Apr 2020 10:13:00: 30000000 INFO @ Wed, 22 Apr 2020 10:13:08: 31000000 INFO @ Wed, 22 Apr 2020 10:13:17: 32000000 INFO @ Wed, 22 Apr 2020 10:13:26: 33000000 INFO @ Wed, 22 Apr 2020 10:13:34: 34000000 INFO @ Wed, 22 Apr 2020 10:13:43: 35000000 INFO @ Wed, 22 Apr 2020 10:13:52: 36000000 INFO @ Wed, 22 Apr 2020 10:14:00: 37000000 INFO @ Wed, 22 Apr 2020 10:14:09: 38000000 INFO @ Wed, 22 Apr 2020 10:14:17: 39000000 INFO @ Wed, 22 Apr 2020 10:14:26: 40000000 INFO @ Wed, 22 Apr 2020 10:14:34: 41000000 INFO @ Wed, 22 Apr 2020 10:14:43: 42000000 INFO @ Wed, 22 Apr 2020 10:14:51: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:14:51: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:14:51: #1 total tags in treatment: 21340370 INFO @ Wed, 22 Apr 2020 10:14:51: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:14:51: #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 10:14:51: #1 tags after filtering in treatment: 12907075 INFO @ Wed, 22 Apr 2020 10:14:51: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Apr 2020 10:14:51: #1 finished! INFO @ Wed, 22 Apr 2020 10:14:51: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:14:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:14:52: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:14:52: 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 10:14:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.20_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/SRX7409559/SRX7409559.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409559/SRX7409559.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling