Job ID = 7117535 SRX = SRX8639538 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:39:55 prefetch.2.10.7: 1) Downloading 'SRR12116976'... 2020-07-22T06:39:55 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:45:28 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:45:28 prefetch.2.10.7: 1) 'SRR12116976' was downloaded successfully 2020-07-22T06:45:28 prefetch.2.10.7: 'SRR12116976' has 0 unresolved dependencies Read 26100373 spots for SRR12116976/SRR12116976.sra Written 26100373 spots for SRR12116976/SRR12116976.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: 00:14:13 26100373 reads; of these: 26100373 (100.00%) were paired; of these: 5178672 (19.84%) aligned concordantly 0 times 18452302 (70.70%) aligned concordantly exactly 1 time 2469399 (9.46%) aligned concordantly >1 times ---- 5178672 pairs aligned concordantly 0 times; of these: 160017 (3.09%) aligned discordantly 1 time ---- 5018655 pairs aligned 0 times concordantly or discordantly; of these: 10037310 mates make up the pairs; of these: 9731901 (96.96%) aligned 0 times 220395 (2.20%) aligned exactly 1 time 85014 (0.85%) aligned >1 times 81.36% overall alignment rate Time searching: 00:14:13 Overall time: 00:14:13 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] 389681 / 21032931 = 0.0185 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 16:11:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.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 16:11:28: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:11:28: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:11:34: 1000000 INFO @ Wed, 22 Jul 2020 16:11:40: 2000000 INFO @ Wed, 22 Jul 2020 16:11:45: 3000000 INFO @ Wed, 22 Jul 2020 16:11:51: 4000000 INFO @ Wed, 22 Jul 2020 16:11:56: 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 16:11:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.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 16:11:58: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:11:58: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:12:02: 6000000 INFO @ Wed, 22 Jul 2020 16:12:04: 1000000 INFO @ Wed, 22 Jul 2020 16:12:08: 7000000 INFO @ Wed, 22 Jul 2020 16:12:10: 2000000 INFO @ Wed, 22 Jul 2020 16:12:13: 8000000 INFO @ Wed, 22 Jul 2020 16:12:16: 3000000 INFO @ Wed, 22 Jul 2020 16:12:19: 9000000 INFO @ Wed, 22 Jul 2020 16:12:22: 4000000 INFO @ Wed, 22 Jul 2020 16:12:24: 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 Jul 2020 16:12:27: 5000000 INFO @ Wed, 22 Jul 2020 16:12:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.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 16:12:28: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:12:28: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:12:30: 11000000 INFO @ Wed, 22 Jul 2020 16:12:33: 6000000 INFO @ Wed, 22 Jul 2020 16:12:34: 1000000 INFO @ Wed, 22 Jul 2020 16:12:35: 12000000 INFO @ Wed, 22 Jul 2020 16:12:39: 7000000 INFO @ Wed, 22 Jul 2020 16:12:39: 2000000 INFO @ Wed, 22 Jul 2020 16:12:41: 13000000 INFO @ Wed, 22 Jul 2020 16:12:44: 3000000 INFO @ Wed, 22 Jul 2020 16:12:44: 8000000 INFO @ Wed, 22 Jul 2020 16:12:47: 14000000 INFO @ Wed, 22 Jul 2020 16:12:50: 4000000 INFO @ Wed, 22 Jul 2020 16:12:50: 9000000 INFO @ Wed, 22 Jul 2020 16:12:53: 15000000 INFO @ Wed, 22 Jul 2020 16:12:56: 5000000 INFO @ Wed, 22 Jul 2020 16:12:56: 10000000 INFO @ Wed, 22 Jul 2020 16:12:59: 16000000 INFO @ Wed, 22 Jul 2020 16:13:01: 6000000 INFO @ Wed, 22 Jul 2020 16:13:02: 11000000 INFO @ Wed, 22 Jul 2020 16:13:04: 17000000 INFO @ Wed, 22 Jul 2020 16:13:07: 7000000 INFO @ Wed, 22 Jul 2020 16:13:08: 12000000 INFO @ Wed, 22 Jul 2020 16:13:10: 18000000 INFO @ Wed, 22 Jul 2020 16:13:13: 8000000 INFO @ Wed, 22 Jul 2020 16:13:13: 13000000 INFO @ Wed, 22 Jul 2020 16:13:16: 19000000 INFO @ Wed, 22 Jul 2020 16:13:19: 9000000 INFO @ Wed, 22 Jul 2020 16:13:19: 14000000 INFO @ Wed, 22 Jul 2020 16:13:22: 20000000 INFO @ Wed, 22 Jul 2020 16:13:24: 15000000 INFO @ Wed, 22 Jul 2020 16:13:24: 10000000 INFO @ Wed, 22 Jul 2020 16:13:27: 21000000 INFO @ Wed, 22 Jul 2020 16:13:30: 16000000 INFO @ Wed, 22 Jul 2020 16:13:30: 11000000 INFO @ Wed, 22 Jul 2020 16:13:33: 22000000 INFO @ Wed, 22 Jul 2020 16:13:36: 17000000 INFO @ Wed, 22 Jul 2020 16:13:36: 12000000 INFO @ Wed, 22 Jul 2020 16:13:39: 23000000 INFO @ Wed, 22 Jul 2020 16:13:42: 18000000 INFO @ Wed, 22 Jul 2020 16:13:42: 13000000 INFO @ Wed, 22 Jul 2020 16:13:45: 24000000 INFO @ Wed, 22 Jul 2020 16:13:47: 19000000 INFO @ Wed, 22 Jul 2020 16:13:48: 14000000 INFO @ Wed, 22 Jul 2020 16:13:50: 25000000 INFO @ Wed, 22 Jul 2020 16:13:53: 20000000 INFO @ Wed, 22 Jul 2020 16:13:54: 15000000 INFO @ Wed, 22 Jul 2020 16:13:56: 26000000 INFO @ Wed, 22 Jul 2020 16:13:59: 21000000 INFO @ Wed, 22 Jul 2020 16:14:00: 16000000 INFO @ Wed, 22 Jul 2020 16:14:02: 27000000 INFO @ Wed, 22 Jul 2020 16:14:04: 22000000 INFO @ Wed, 22 Jul 2020 16:14:06: 17000000 INFO @ Wed, 22 Jul 2020 16:14:08: 28000000 INFO @ Wed, 22 Jul 2020 16:14:10: 23000000 INFO @ Wed, 22 Jul 2020 16:14:12: 18000000 INFO @ Wed, 22 Jul 2020 16:14:14: 29000000 INFO @ Wed, 22 Jul 2020 16:14:15: 24000000 INFO @ Wed, 22 Jul 2020 16:14:17: 19000000 INFO @ Wed, 22 Jul 2020 16:14:20: 30000000 INFO @ Wed, 22 Jul 2020 16:14:21: 25000000 INFO @ Wed, 22 Jul 2020 16:14:23: 20000000 INFO @ Wed, 22 Jul 2020 16:14:26: 31000000 INFO @ Wed, 22 Jul 2020 16:14:27: 26000000 INFO @ Wed, 22 Jul 2020 16:14:29: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:14:32: 32000000 INFO @ Wed, 22 Jul 2020 16:14:33: 27000000 INFO @ Wed, 22 Jul 2020 16:14:35: 22000000 INFO @ Wed, 22 Jul 2020 16:14:38: 33000000 INFO @ Wed, 22 Jul 2020 16:14:39: 28000000 INFO @ Wed, 22 Jul 2020 16:14:41: 23000000 INFO @ Wed, 22 Jul 2020 16:14:43: 34000000 INFO @ Wed, 22 Jul 2020 16:14:45: 29000000 INFO @ Wed, 22 Jul 2020 16:14:47: 24000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:14:49: 35000000 INFO @ Wed, 22 Jul 2020 16:14:51: 30000000 INFO @ Wed, 22 Jul 2020 16:14:52: 25000000 INFO @ Wed, 22 Jul 2020 16:14:55: 36000000 INFO @ Wed, 22 Jul 2020 16:14:57: 31000000 INFO @ Wed, 22 Jul 2020 16:14:58: 26000000 INFO @ Wed, 22 Jul 2020 16:15:00: 37000000 INFO @ Wed, 22 Jul 2020 16:15:03: 32000000 INFO @ Wed, 22 Jul 2020 16:15:04: 27000000 INFO @ Wed, 22 Jul 2020 16:15:06: 38000000 INFO @ Wed, 22 Jul 2020 16:15:09: 33000000 INFO @ Wed, 22 Jul 2020 16:15:09: 28000000 INFO @ Wed, 22 Jul 2020 16:15:12: 39000000 INFO @ Wed, 22 Jul 2020 16:15:14: 29000000 INFO @ Wed, 22 Jul 2020 16:15:14: 34000000 INFO @ Wed, 22 Jul 2020 16:15:18: 40000000 INFO @ Wed, 22 Jul 2020 16:15:19: 30000000 INFO @ Wed, 22 Jul 2020 16:15:20: 35000000 INFO @ Wed, 22 Jul 2020 16:15:24: 41000000 INFO @ Wed, 22 Jul 2020 16:15:25: 31000000 INFO @ Wed, 22 Jul 2020 16:15:26: 36000000 INFO @ Wed, 22 Jul 2020 16:15:28: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:15:28: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:15:28: #1 total tags in treatment: 20532215 INFO @ Wed, 22 Jul 2020 16:15:28: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:15:28: #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 16:15:28: #1 tags after filtering in treatment: 12914138 INFO @ Wed, 22 Jul 2020 16:15:28: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 16:15:28: #1 finished! INFO @ Wed, 22 Jul 2020 16:15:28: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:15:28: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:15:29: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:15:29: 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 16:15:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.05_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/SRX8639538/SRX8639538.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:15:31: 32000000 INFO @ Wed, 22 Jul 2020 16:15:32: 37000000 INFO @ Wed, 22 Jul 2020 16:15:37: 33000000 INFO @ Wed, 22 Jul 2020 16:15:37: 38000000 INFO @ Wed, 22 Jul 2020 16:15:42: 34000000 INFO @ Wed, 22 Jul 2020 16:15:42: 39000000 INFO @ Wed, 22 Jul 2020 16:15:48: 35000000 INFO @ Wed, 22 Jul 2020 16:15:48: 40000000 INFO @ Wed, 22 Jul 2020 16:15:53: 41000000 INFO @ Wed, 22 Jul 2020 16:15:54: 36000000 INFO @ Wed, 22 Jul 2020 16:15:57: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:15:57: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:15:57: #1 total tags in treatment: 20532215 INFO @ Wed, 22 Jul 2020 16:15:57: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:15:57: #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 16:15:58: #1 tags after filtering in treatment: 12914138 INFO @ Wed, 22 Jul 2020 16:15:58: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 16:15:58: #1 finished! INFO @ Wed, 22 Jul 2020 16:15:58: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:15:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:15:59: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:15:59: 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 16:15:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.10_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/SRX8639538/SRX8639538.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:15:59: 37000000 INFO @ Wed, 22 Jul 2020 16:16:05: 38000000 INFO @ Wed, 22 Jul 2020 16:16:10: 39000000 INFO @ Wed, 22 Jul 2020 16:16:16: 40000000 INFO @ Wed, 22 Jul 2020 16:16:21: 41000000 INFO @ Wed, 22 Jul 2020 16:16:25: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:16:25: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:16:25: #1 total tags in treatment: 20532215 INFO @ Wed, 22 Jul 2020 16:16:25: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:16:25: #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 16:16:26: #1 tags after filtering in treatment: 12914138 INFO @ Wed, 22 Jul 2020 16:16:26: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 16:16:26: #1 finished! INFO @ Wed, 22 Jul 2020 16:16:26: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:16:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:16:26: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:16:26: 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 16:16:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.20_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/SRX8639538/SRX8639538.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639538/SRX8639538.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling