Job ID = 6367622 SRX = SRX3583334 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:29:35 prefetch.2.10.7: 1) Downloading 'SRR6493990'... 2020-06-15T23:29:35 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:36:11 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:36:11 prefetch.2.10.7: 1) 'SRR6493990' was downloaded successfully 2020-06-15T23:36:11 prefetch.2.10.7: 'SRR6493990' has 0 unresolved dependencies Read 41569262 spots for SRR6493990/SRR6493990.sra Written 41569262 spots for SRR6493990/SRR6493990.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: 00:12:26 41569262 reads; of these: 41569262 (100.00%) were unpaired; of these: 8297961 (19.96%) aligned 0 times 28544594 (68.67%) aligned exactly 1 time 4726707 (11.37%) aligned >1 times 80.04% overall alignment rate Time searching: 00:12:26 Overall time: 00:12:26 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 16 files... [bam_rmdupse_core] 7758781 / 33271301 = 0.2332 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 @ Tue, 16 Jun 2020 08:58:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.bam'] # control file = None # effective genome size = 9.00e+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 @ Tue, 16 Jun 2020 08:58:56: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:58:56: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:59:03: 1000000 INFO @ Tue, 16 Jun 2020 08:59:11: 2000000 INFO @ Tue, 16 Jun 2020 08:59:19: 3000000 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 @ Tue, 16 Jun 2020 08:59:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.bam'] # control file = None # effective genome size = 9.00e+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 @ Tue, 16 Jun 2020 08:59:25: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:59:25: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:59:28: 4000000 INFO @ Tue, 16 Jun 2020 08:59:34: 1000000 INFO @ Tue, 16 Jun 2020 08:59:36: 5000000 INFO @ Tue, 16 Jun 2020 08:59:43: 2000000 INFO @ Tue, 16 Jun 2020 08:59:45: 6000000 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 @ Tue, 16 Jun 2020 08:59:53: 3000000 INFO @ Tue, 16 Jun 2020 08:59:54: 7000000 INFO @ Tue, 16 Jun 2020 08:59:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.bam'] # control file = None # effective genome size = 9.00e+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 @ Tue, 16 Jun 2020 08:59:55: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:59:55: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:00:02: 4000000 INFO @ Tue, 16 Jun 2020 09:00:03: 1000000 INFO @ Tue, 16 Jun 2020 09:00:04: 8000000 INFO @ Tue, 16 Jun 2020 09:00:12: 2000000 INFO @ Tue, 16 Jun 2020 09:00:12: 5000000 INFO @ Tue, 16 Jun 2020 09:00:13: 9000000 INFO @ Tue, 16 Jun 2020 09:00:20: 3000000 INFO @ Tue, 16 Jun 2020 09:00:21: 6000000 INFO @ Tue, 16 Jun 2020 09:00:23: 10000000 INFO @ Tue, 16 Jun 2020 09:00:28: 4000000 INFO @ Tue, 16 Jun 2020 09:00:30: 7000000 INFO @ Tue, 16 Jun 2020 09:00:32: 11000000 INFO @ Tue, 16 Jun 2020 09:00:37: 5000000 INFO @ Tue, 16 Jun 2020 09:00:40: 8000000 INFO @ Tue, 16 Jun 2020 09:00:41: 12000000 INFO @ Tue, 16 Jun 2020 09:00:45: 6000000 INFO @ Tue, 16 Jun 2020 09:00:49: 9000000 INFO @ Tue, 16 Jun 2020 09:00:50: 13000000 INFO @ Tue, 16 Jun 2020 09:00:54: 7000000 INFO @ Tue, 16 Jun 2020 09:00:58: 10000000 INFO @ Tue, 16 Jun 2020 09:00:59: 14000000 INFO @ Tue, 16 Jun 2020 09:01:02: 8000000 INFO @ Tue, 16 Jun 2020 09:01:07: 11000000 INFO @ Tue, 16 Jun 2020 09:01:08: 15000000 INFO @ Tue, 16 Jun 2020 09:01:11: 9000000 INFO @ Tue, 16 Jun 2020 09:01:16: 12000000 INFO @ Tue, 16 Jun 2020 09:01:16: 16000000 INFO @ Tue, 16 Jun 2020 09:01:20: 10000000 INFO @ Tue, 16 Jun 2020 09:01:25: 13000000 INFO @ Tue, 16 Jun 2020 09:01:25: 17000000 INFO @ Tue, 16 Jun 2020 09:01:28: 11000000 INFO @ Tue, 16 Jun 2020 09:01:34: 14000000 INFO @ Tue, 16 Jun 2020 09:01:34: 18000000 INFO @ Tue, 16 Jun 2020 09:01:37: 12000000 INFO @ Tue, 16 Jun 2020 09:01:43: 15000000 INFO @ Tue, 16 Jun 2020 09:01:44: 19000000 INFO @ Tue, 16 Jun 2020 09:01:45: 13000000 INFO @ Tue, 16 Jun 2020 09:01:52: 16000000 INFO @ Tue, 16 Jun 2020 09:01:53: 20000000 INFO @ Tue, 16 Jun 2020 09:01:54: 14000000 INFO @ Tue, 16 Jun 2020 09:02:01: 17000000 INFO @ Tue, 16 Jun 2020 09:02:02: 21000000 INFO @ Tue, 16 Jun 2020 09:02:03: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:02:11: 18000000 INFO @ Tue, 16 Jun 2020 09:02:11: 22000000 INFO @ Tue, 16 Jun 2020 09:02:11: 16000000 INFO @ Tue, 16 Jun 2020 09:02:20: 17000000 INFO @ Tue, 16 Jun 2020 09:02:20: 23000000 INFO @ Tue, 16 Jun 2020 09:02:20: 19000000 INFO @ Tue, 16 Jun 2020 09:02:28: 18000000 INFO @ Tue, 16 Jun 2020 09:02:29: 24000000 INFO @ Tue, 16 Jun 2020 09:02:29: 20000000 INFO @ Tue, 16 Jun 2020 09:02:36: 19000000 INFO @ Tue, 16 Jun 2020 09:02:38: 25000000 INFO @ Tue, 16 Jun 2020 09:02:39: 21000000 INFO @ Tue, 16 Jun 2020 09:02:42: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:02:42: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:02:42: #1 total tags in treatment: 25512520 INFO @ Tue, 16 Jun 2020 09:02:42: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:02:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 09:02:43: #1 tags after filtering in treatment: 25512520 INFO @ Tue, 16 Jun 2020 09:02:43: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:02:43: #1 finished! INFO @ Tue, 16 Jun 2020 09:02:43: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:02:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:02:45: #2 number of paired peaks: 99 WARNING @ Tue, 16 Jun 2020 09:02:45: Too few paired peaks (99) 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 @ Tue, 16 Jun 2020 09:02:45: Process for pairing-model is terminated! INFO @ Tue, 16 Jun 2020 09:02:45: 20000000 cut: /home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.05_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/ce11/SRX3583334/SRX3583334.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:02:48: 22000000 INFO @ Tue, 16 Jun 2020 09:02:53: 21000000 INFO @ Tue, 16 Jun 2020 09:02:56: 23000000 INFO @ Tue, 16 Jun 2020 09:03:01: 22000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 09:03:05: 24000000 INFO @ Tue, 16 Jun 2020 09:03:09: 23000000 INFO @ Tue, 16 Jun 2020 09:03:14: 25000000 INFO @ Tue, 16 Jun 2020 09:03:17: 24000000 INFO @ Tue, 16 Jun 2020 09:03:18: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:03:18: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:03:18: #1 total tags in treatment: 25512520 INFO @ Tue, 16 Jun 2020 09:03:18: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:03:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 09:03:19: #1 tags after filtering in treatment: 25512520 INFO @ Tue, 16 Jun 2020 09:03:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:03:19: #1 finished! INFO @ Tue, 16 Jun 2020 09:03:19: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:03:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:03:20: #2 number of paired peaks: 99 WARNING @ Tue, 16 Jun 2020 09:03:20: Too few paired peaks (99) 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 @ Tue, 16 Jun 2020 09:03:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.10_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/ce11/SRX3583334/SRX3583334.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:03:25: 25000000 INFO @ Tue, 16 Jun 2020 09:03:28: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 09:03:28: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 09:03:28: #1 total tags in treatment: 25512520 INFO @ Tue, 16 Jun 2020 09:03:28: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:03:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 09:03:29: #1 tags after filtering in treatment: 25512520 INFO @ Tue, 16 Jun 2020 09:03:29: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:03:29: #1 finished! INFO @ Tue, 16 Jun 2020 09:03:29: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:03:29: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:03:31: #2 number of paired peaks: 99 WARNING @ Tue, 16 Jun 2020 09:03:31: Too few paired peaks (99) 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 @ Tue, 16 Jun 2020 09:03:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.20_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/ce11/SRX3583334/SRX3583334.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX3583334/SRX3583334.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling