Job ID = 5791487 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 33,877,253 reads read : 67,754,506 reads written : 67,754,506 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: 00:21:34 33877253 reads; of these: 33877253 (100.00%) were paired; of these: 378417 (1.12%) aligned concordantly 0 times 29888881 (88.23%) aligned concordantly exactly 1 time 3609955 (10.66%) aligned concordantly >1 times ---- 378417 pairs aligned concordantly 0 times; of these: 89150 (23.56%) aligned discordantly 1 time ---- 289267 pairs aligned 0 times concordantly or discordantly; of these: 578534 mates make up the pairs; of these: 356968 (61.70%) aligned 0 times 164831 (28.49%) aligned exactly 1 time 56735 (9.81%) aligned >1 times 99.47% overall alignment rate Time searching: 00:21:34 Overall time: 00:21:34 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] 7638264 / 33515163 = 0.2279 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 10:24:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.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 10:24:57: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:24:57: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:25:03: 1000000 INFO @ Wed, 22 Apr 2020 10:25:09: 2000000 INFO @ Wed, 22 Apr 2020 10:25:15: 3000000 INFO @ Wed, 22 Apr 2020 10:25:20: 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 10:25:26: 5000000 INFO @ Wed, 22 Apr 2020 10:25:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.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 10:25:27: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:25:27: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:25:32: 6000000 INFO @ Wed, 22 Apr 2020 10:25:34: 1000000 INFO @ Wed, 22 Apr 2020 10:25:38: 7000000 INFO @ Wed, 22 Apr 2020 10:25:40: 2000000 INFO @ Wed, 22 Apr 2020 10:25:45: 8000000 INFO @ Wed, 22 Apr 2020 10:25:46: 3000000 INFO @ Wed, 22 Apr 2020 10:25:51: 9000000 INFO @ Wed, 22 Apr 2020 10:25:52: 4000000 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 10:25:57: 10000000 INFO @ Wed, 22 Apr 2020 10:25:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.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 10:25:57: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:25:57: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:25:58: 5000000 INFO @ Wed, 22 Apr 2020 10:26:03: 11000000 INFO @ Wed, 22 Apr 2020 10:26:04: 1000000 INFO @ Wed, 22 Apr 2020 10:26:05: 6000000 INFO @ Wed, 22 Apr 2020 10:26:09: 12000000 INFO @ Wed, 22 Apr 2020 10:26:10: 2000000 INFO @ Wed, 22 Apr 2020 10:26:11: 7000000 INFO @ Wed, 22 Apr 2020 10:26:16: 13000000 INFO @ Wed, 22 Apr 2020 10:26:16: 3000000 INFO @ Wed, 22 Apr 2020 10:26:17: 8000000 INFO @ Wed, 22 Apr 2020 10:26:22: 14000000 INFO @ Wed, 22 Apr 2020 10:26:23: 4000000 INFO @ Wed, 22 Apr 2020 10:26:23: 9000000 INFO @ Wed, 22 Apr 2020 10:26:28: 15000000 INFO @ Wed, 22 Apr 2020 10:26:29: 5000000 INFO @ Wed, 22 Apr 2020 10:26:30: 10000000 INFO @ Wed, 22 Apr 2020 10:26:34: 16000000 INFO @ Wed, 22 Apr 2020 10:26:35: 6000000 INFO @ Wed, 22 Apr 2020 10:26:36: 11000000 INFO @ Wed, 22 Apr 2020 10:26:41: 17000000 INFO @ Wed, 22 Apr 2020 10:26:41: 7000000 INFO @ Wed, 22 Apr 2020 10:26:42: 12000000 INFO @ Wed, 22 Apr 2020 10:26:47: 18000000 INFO @ Wed, 22 Apr 2020 10:26:47: 8000000 INFO @ Wed, 22 Apr 2020 10:26:48: 13000000 INFO @ Wed, 22 Apr 2020 10:26:53: 19000000 INFO @ Wed, 22 Apr 2020 10:26:54: 9000000 INFO @ Wed, 22 Apr 2020 10:26:54: 14000000 INFO @ Wed, 22 Apr 2020 10:26:59: 20000000 INFO @ Wed, 22 Apr 2020 10:27:00: 10000000 INFO @ Wed, 22 Apr 2020 10:27:01: 15000000 INFO @ Wed, 22 Apr 2020 10:27:05: 21000000 INFO @ Wed, 22 Apr 2020 10:27:06: 11000000 INFO @ Wed, 22 Apr 2020 10:27:07: 16000000 INFO @ Wed, 22 Apr 2020 10:27:11: 22000000 INFO @ Wed, 22 Apr 2020 10:27:12: 12000000 INFO @ Wed, 22 Apr 2020 10:27:13: 17000000 INFO @ Wed, 22 Apr 2020 10:27:17: 23000000 INFO @ Wed, 22 Apr 2020 10:27:18: 13000000 INFO @ Wed, 22 Apr 2020 10:27:19: 18000000 INFO @ Wed, 22 Apr 2020 10:27:23: 24000000 INFO @ Wed, 22 Apr 2020 10:27:24: 14000000 INFO @ Wed, 22 Apr 2020 10:27:25: 19000000 INFO @ Wed, 22 Apr 2020 10:27:29: 25000000 INFO @ Wed, 22 Apr 2020 10:27:30: 15000000 INFO @ Wed, 22 Apr 2020 10:27:32: 20000000 INFO @ Wed, 22 Apr 2020 10:27:36: 26000000 INFO @ Wed, 22 Apr 2020 10:27:37: 16000000 INFO @ Wed, 22 Apr 2020 10:27:38: 21000000 INFO @ Wed, 22 Apr 2020 10:27:42: 27000000 INFO @ Wed, 22 Apr 2020 10:27:43: 17000000 INFO @ Wed, 22 Apr 2020 10:27:44: 22000000 INFO @ Wed, 22 Apr 2020 10:27:48: 28000000 INFO @ Wed, 22 Apr 2020 10:27:49: 18000000 INFO @ Wed, 22 Apr 2020 10:27:51: 23000000 INFO @ Wed, 22 Apr 2020 10:27:54: 29000000 INFO @ Wed, 22 Apr 2020 10:27:55: 19000000 INFO @ Wed, 22 Apr 2020 10:27:57: 24000000 INFO @ Wed, 22 Apr 2020 10:28:00: 30000000 INFO @ Wed, 22 Apr 2020 10:28:01: 20000000 INFO @ Wed, 22 Apr 2020 10:28:03: 25000000 INFO @ Wed, 22 Apr 2020 10:28:06: 31000000 INFO @ Wed, 22 Apr 2020 10:28:08: 21000000 INFO @ Wed, 22 Apr 2020 10:28:09: 26000000 INFO @ Wed, 22 Apr 2020 10:28:13: 32000000 INFO @ Wed, 22 Apr 2020 10:28:14: 22000000 INFO @ Wed, 22 Apr 2020 10:28:15: 27000000 INFO @ Wed, 22 Apr 2020 10:28:19: 33000000 INFO @ Wed, 22 Apr 2020 10:28:20: 23000000 INFO @ Wed, 22 Apr 2020 10:28:21: 28000000 INFO @ Wed, 22 Apr 2020 10:28:25: 34000000 INFO @ Wed, 22 Apr 2020 10:28:26: 24000000 INFO @ Wed, 22 Apr 2020 10:28:28: 29000000 INFO @ Wed, 22 Apr 2020 10:28:31: 35000000 INFO @ Wed, 22 Apr 2020 10:28:33: 25000000 INFO @ Wed, 22 Apr 2020 10:28:34: 30000000 INFO @ Wed, 22 Apr 2020 10:28:37: 36000000 INFO @ Wed, 22 Apr 2020 10:28:38: 26000000 INFO @ Wed, 22 Apr 2020 10:28:39: 31000000 INFO @ Wed, 22 Apr 2020 10:28:42: 37000000 INFO @ Wed, 22 Apr 2020 10:28:43: 27000000 INFO @ Wed, 22 Apr 2020 10:28:44: 32000000 INFO @ Wed, 22 Apr 2020 10:28:47: 38000000 INFO @ Wed, 22 Apr 2020 10:28:49: 28000000 INFO @ Wed, 22 Apr 2020 10:28:49: 33000000 INFO @ Wed, 22 Apr 2020 10:28:53: 39000000 INFO @ Wed, 22 Apr 2020 10:28:54: 29000000 INFO @ Wed, 22 Apr 2020 10:28:55: 34000000 INFO @ Wed, 22 Apr 2020 10:28:58: 40000000 INFO @ Wed, 22 Apr 2020 10:28:59: 30000000 INFO @ Wed, 22 Apr 2020 10:29:00: 35000000 INFO @ Wed, 22 Apr 2020 10:29:03: 41000000 INFO @ Wed, 22 Apr 2020 10:29:05: 31000000 INFO @ Wed, 22 Apr 2020 10:29:05: 36000000 INFO @ Wed, 22 Apr 2020 10:29:08: 42000000 INFO @ Wed, 22 Apr 2020 10:29:10: 32000000 INFO @ Wed, 22 Apr 2020 10:29:11: 37000000 INFO @ Wed, 22 Apr 2020 10:29:14: 43000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:29:15: 33000000 INFO @ Wed, 22 Apr 2020 10:29:16: 38000000 INFO @ Wed, 22 Apr 2020 10:29:19: 44000000 INFO @ Wed, 22 Apr 2020 10:29:20: 34000000 INFO @ Wed, 22 Apr 2020 10:29:21: 39000000 INFO @ Wed, 22 Apr 2020 10:29:24: 45000000 INFO @ Wed, 22 Apr 2020 10:29:26: 35000000 INFO @ Wed, 22 Apr 2020 10:29:27: 40000000 INFO @ Wed, 22 Apr 2020 10:29:29: 46000000 INFO @ Wed, 22 Apr 2020 10:29:31: 36000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:29:32: 41000000 INFO @ Wed, 22 Apr 2020 10:29:35: 47000000 INFO @ Wed, 22 Apr 2020 10:29:36: 37000000 INFO @ Wed, 22 Apr 2020 10:29:37: 42000000 INFO @ Wed, 22 Apr 2020 10:29:40: 48000000 INFO @ Wed, 22 Apr 2020 10:29:42: 38000000 INFO @ Wed, 22 Apr 2020 10:29:43: 43000000 INFO @ Wed, 22 Apr 2020 10:29:45: 49000000 INFO @ Wed, 22 Apr 2020 10:29:47: 39000000 INFO @ Wed, 22 Apr 2020 10:29:48: 44000000 INFO @ Wed, 22 Apr 2020 10:29:51: 50000000 INFO @ Wed, 22 Apr 2020 10:29:52: 40000000 INFO @ Wed, 22 Apr 2020 10:29:53: 45000000 INFO @ Wed, 22 Apr 2020 10:29:56: 51000000 INFO @ Wed, 22 Apr 2020 10:29:57: 41000000 INFO @ Wed, 22 Apr 2020 10:29:59: 46000000 INFO @ Wed, 22 Apr 2020 10:30:01: 52000000 INFO @ Wed, 22 Apr 2020 10:30:02: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:30:02: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:30:02: #1 total tags in treatment: 25862987 INFO @ Wed, 22 Apr 2020 10:30:02: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:30:02: #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 10:30:03: #1 tags after filtering in treatment: 14663700 INFO @ Wed, 22 Apr 2020 10:30:03: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 22 Apr 2020 10:30:03: #1 finished! INFO @ Wed, 22 Apr 2020 10:30:03: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:30:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:30:03: 42000000 INFO @ Wed, 22 Apr 2020 10:30:03: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:30:03: 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 10:30:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.05_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/SRX7409574/SRX7409574.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:30:04: 47000000 INFO @ Wed, 22 Apr 2020 10:30:08: 43000000 INFO @ Wed, 22 Apr 2020 10:30:09: 48000000 INFO @ Wed, 22 Apr 2020 10:30:13: 44000000 INFO @ Wed, 22 Apr 2020 10:30:14: 49000000 INFO @ Wed, 22 Apr 2020 10:30:18: 45000000 INFO @ Wed, 22 Apr 2020 10:30:19: 50000000 INFO @ Wed, 22 Apr 2020 10:30:24: 46000000 INFO @ Wed, 22 Apr 2020 10:30:24: 51000000 INFO @ Wed, 22 Apr 2020 10:30:29: 47000000 INFO @ Wed, 22 Apr 2020 10:30:30: 52000000 INFO @ Wed, 22 Apr 2020 10:30:30: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:30:30: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:30:30: #1 total tags in treatment: 25862987 INFO @ Wed, 22 Apr 2020 10:30:30: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:30:30: #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 10:30:31: #1 tags after filtering in treatment: 14663700 INFO @ Wed, 22 Apr 2020 10:30:31: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 22 Apr 2020 10:30:31: #1 finished! INFO @ Wed, 22 Apr 2020 10:30:31: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:30:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:30:32: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:30:32: 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 10:30:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.10_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/SRX7409574/SRX7409574.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:30:34: 48000000 INFO @ Wed, 22 Apr 2020 10:30:39: 49000000 INFO @ Wed, 22 Apr 2020 10:30:44: 50000000 INFO @ Wed, 22 Apr 2020 10:30:48: 51000000 INFO @ Wed, 22 Apr 2020 10:30:53: 52000000 INFO @ Wed, 22 Apr 2020 10:30:54: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:30:54: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:30:54: #1 total tags in treatment: 25862987 INFO @ Wed, 22 Apr 2020 10:30:54: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:30:54: #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 10:30:55: #1 tags after filtering in treatment: 14663700 INFO @ Wed, 22 Apr 2020 10:30:55: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 22 Apr 2020 10:30:55: #1 finished! INFO @ Wed, 22 Apr 2020 10:30:55: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:30:55: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:30:55: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:30:55: 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 10:30:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.20_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/SRX7409574/SRX7409574.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409574/SRX7409574.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling