Job ID = 7117742 SRX = SRX8639552 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:44:44 prefetch.2.10.7: 1) Downloading 'SRR12116990'... 2020-07-22T06:44:44 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:46:33 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:46:33 prefetch.2.10.7: 1) 'SRR12116990' was downloaded successfully 2020-07-22T06:46:33 prefetch.2.10.7: 'SRR12116990' has 0 unresolved dependencies Read 21856474 spots for SRR12116990/SRR12116990.sra Written 21856474 spots for SRR12116990/SRR12116990.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: 00:09:22 21856474 reads; of these: 21856474 (100.00%) were paired; of these: 5143725 (23.53%) aligned concordantly 0 times 14517959 (66.42%) aligned concordantly exactly 1 time 2194790 (10.04%) aligned concordantly >1 times ---- 5143725 pairs aligned concordantly 0 times; of these: 216545 (4.21%) aligned discordantly 1 time ---- 4927180 pairs aligned 0 times concordantly or discordantly; of these: 9854360 mates make up the pairs; of these: 9525978 (96.67%) aligned 0 times 208041 (2.11%) aligned exactly 1 time 120341 (1.22%) aligned >1 times 78.21% overall alignment rate Time searching: 00:09:22 Overall time: 00:09:22 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 16 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] 312166 / 16903932 = 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 16:05:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.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 16:05:08: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:05:08: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:05:14: 1000000 INFO @ Wed, 22 Jul 2020 16:05:20: 2000000 INFO @ Wed, 22 Jul 2020 16:05:26: 3000000 INFO @ Wed, 22 Jul 2020 16:05:32: 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 Jul 2020 16:05:37: 5000000 INFO @ Wed, 22 Jul 2020 16:05:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.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 16:05:38: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:05:38: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:05:44: 6000000 INFO @ Wed, 22 Jul 2020 16:05:45: 1000000 INFO @ Wed, 22 Jul 2020 16:05:51: 7000000 INFO @ Wed, 22 Jul 2020 16:05:52: 2000000 INFO @ Wed, 22 Jul 2020 16:05:58: 8000000 INFO @ Wed, 22 Jul 2020 16:05:59: 3000000 INFO @ Wed, 22 Jul 2020 16:06:05: 9000000 INFO @ Wed, 22 Jul 2020 16:06:06: 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 Jul 2020 16:06:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.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 16:06:08: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:06:08: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:06:11: 10000000 INFO @ Wed, 22 Jul 2020 16:06:13: 5000000 INFO @ Wed, 22 Jul 2020 16:06:15: 1000000 INFO @ Wed, 22 Jul 2020 16:06:18: 11000000 INFO @ Wed, 22 Jul 2020 16:06:19: 6000000 INFO @ Wed, 22 Jul 2020 16:06:22: 2000000 INFO @ Wed, 22 Jul 2020 16:06:26: 7000000 INFO @ Wed, 22 Jul 2020 16:06:26: 12000000 INFO @ Wed, 22 Jul 2020 16:06:29: 3000000 INFO @ Wed, 22 Jul 2020 16:06:32: 8000000 INFO @ Wed, 22 Jul 2020 16:06:33: 13000000 INFO @ Wed, 22 Jul 2020 16:06:35: 4000000 INFO @ Wed, 22 Jul 2020 16:06:39: 9000000 INFO @ Wed, 22 Jul 2020 16:06:40: 14000000 INFO @ Wed, 22 Jul 2020 16:06:42: 5000000 INFO @ Wed, 22 Jul 2020 16:06:46: 10000000 INFO @ Wed, 22 Jul 2020 16:06:48: 15000000 INFO @ Wed, 22 Jul 2020 16:06:49: 6000000 INFO @ Wed, 22 Jul 2020 16:06:53: 11000000 INFO @ Wed, 22 Jul 2020 16:06:55: 16000000 INFO @ Wed, 22 Jul 2020 16:06:56: 7000000 INFO @ Wed, 22 Jul 2020 16:07:00: 12000000 INFO @ Wed, 22 Jul 2020 16:07:02: 17000000 INFO @ Wed, 22 Jul 2020 16:07:03: 8000000 INFO @ Wed, 22 Jul 2020 16:07:07: 13000000 INFO @ Wed, 22 Jul 2020 16:07:10: 9000000 INFO @ Wed, 22 Jul 2020 16:07:10: 18000000 INFO @ Wed, 22 Jul 2020 16:07:14: 14000000 INFO @ Wed, 22 Jul 2020 16:07:17: 10000000 INFO @ Wed, 22 Jul 2020 16:07:18: 19000000 INFO @ Wed, 22 Jul 2020 16:07:21: 15000000 INFO @ Wed, 22 Jul 2020 16:07:24: 11000000 INFO @ Wed, 22 Jul 2020 16:07:25: 20000000 INFO @ Wed, 22 Jul 2020 16:07:28: 16000000 INFO @ Wed, 22 Jul 2020 16:07:32: 12000000 INFO @ Wed, 22 Jul 2020 16:07:33: 21000000 INFO @ Wed, 22 Jul 2020 16:07:35: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:07:39: 13000000 INFO @ Wed, 22 Jul 2020 16:07:41: 22000000 INFO @ Wed, 22 Jul 2020 16:07:43: 18000000 INFO @ Wed, 22 Jul 2020 16:07:46: 14000000 INFO @ Wed, 22 Jul 2020 16:07:48: 23000000 INFO @ Wed, 22 Jul 2020 16:07:50: 19000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:07:53: 15000000 INFO @ Wed, 22 Jul 2020 16:07:56: 24000000 INFO @ Wed, 22 Jul 2020 16:07:57: 20000000 INFO @ Wed, 22 Jul 2020 16:08:01: 16000000 INFO @ Wed, 22 Jul 2020 16:08:04: 25000000 INFO @ Wed, 22 Jul 2020 16:08:05: 21000000 INFO @ Wed, 22 Jul 2020 16:08:08: 17000000 INFO @ Wed, 22 Jul 2020 16:08:12: 26000000 INFO @ Wed, 22 Jul 2020 16:08:12: 22000000 INFO @ Wed, 22 Jul 2020 16:08:15: 18000000 INFO @ Wed, 22 Jul 2020 16:08:19: 27000000 INFO @ Wed, 22 Jul 2020 16:08:19: 23000000 INFO @ Wed, 22 Jul 2020 16:08:22: 19000000 INFO @ Wed, 22 Jul 2020 16:08:27: 24000000 INFO @ Wed, 22 Jul 2020 16:08:27: 28000000 INFO @ Wed, 22 Jul 2020 16:08:30: 20000000 INFO @ Wed, 22 Jul 2020 16:08:34: 25000000 INFO @ Wed, 22 Jul 2020 16:08:35: 29000000 INFO @ Wed, 22 Jul 2020 16:08:37: 21000000 INFO @ Wed, 22 Jul 2020 16:08:42: 26000000 INFO @ Wed, 22 Jul 2020 16:08:42: 30000000 INFO @ Wed, 22 Jul 2020 16:08:45: 22000000 INFO @ Wed, 22 Jul 2020 16:08:49: 27000000 INFO @ Wed, 22 Jul 2020 16:08:50: 31000000 INFO @ Wed, 22 Jul 2020 16:08:52: 23000000 INFO @ Wed, 22 Jul 2020 16:08:56: 28000000 INFO @ Wed, 22 Jul 2020 16:08:58: 32000000 INFO @ Wed, 22 Jul 2020 16:09:00: 24000000 INFO @ Wed, 22 Jul 2020 16:09:04: 29000000 INFO @ Wed, 22 Jul 2020 16:09:05: 33000000 INFO @ Wed, 22 Jul 2020 16:09:07: 25000000 INFO @ Wed, 22 Jul 2020 16:09:09: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:09:09: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:09:09: #1 total tags in treatment: 16401203 INFO @ Wed, 22 Jul 2020 16:09:09: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:09:09: #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 16:09:10: #1 tags after filtering in treatment: 11050373 INFO @ Wed, 22 Jul 2020 16:09:10: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Jul 2020 16:09:10: #1 finished! INFO @ Wed, 22 Jul 2020 16:09:10: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:09:10: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:09:10: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:09:10: 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 16:09:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.05_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/SRX8639552/SRX8639552.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:09:11: 30000000 INFO @ Wed, 22 Jul 2020 16:09:14: 26000000 INFO @ Wed, 22 Jul 2020 16:09:17: 31000000 INFO @ Wed, 22 Jul 2020 16:09:20: 27000000 INFO @ Wed, 22 Jul 2020 16:09:23: 32000000 INFO @ Wed, 22 Jul 2020 16:09:26: 28000000 INFO @ Wed, 22 Jul 2020 16:09:30: 33000000 INFO @ Wed, 22 Jul 2020 16:09:32: 29000000 INFO @ Wed, 22 Jul 2020 16:09:33: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:09:33: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:09:33: #1 total tags in treatment: 16401203 INFO @ Wed, 22 Jul 2020 16:09:33: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:09:33: #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 16:09:33: #1 tags after filtering in treatment: 11050373 INFO @ Wed, 22 Jul 2020 16:09:33: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Jul 2020 16:09:33: #1 finished! INFO @ Wed, 22 Jul 2020 16:09:33: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:09:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:09:34: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:09:34: 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 16:09:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.10_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/SRX8639552/SRX8639552.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:09:38: 30000000 INFO @ Wed, 22 Jul 2020 16:09:43: 31000000 INFO @ Wed, 22 Jul 2020 16:09:49: 32000000 INFO @ Wed, 22 Jul 2020 16:09:54: 33000000 INFO @ Wed, 22 Jul 2020 16:09:57: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:09:57: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:09:57: #1 total tags in treatment: 16401203 INFO @ Wed, 22 Jul 2020 16:09:57: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:09:57: #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 16:09:58: #1 tags after filtering in treatment: 11050373 INFO @ Wed, 22 Jul 2020 16:09:58: #1 Redundant rate of treatment: 0.33 INFO @ Wed, 22 Jul 2020 16:09:58: #1 finished! INFO @ Wed, 22 Jul 2020 16:09:58: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:09:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:09:58: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:09:58: 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 16:09:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.20_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/SRX8639552/SRX8639552.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639552/SRX8639552.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling