Job ID = 6366273 SRX = SRX1030169 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T22:38:36 prefetch.2.10.7: 1) Downloading 'SRR2029635'... 2020-06-15T22:38:36 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T22:40:17 prefetch.2.10.7: HTTPS download succeed 2020-06-15T22:40:18 prefetch.2.10.7: 'SRR2029635' is valid 2020-06-15T22:40:18 prefetch.2.10.7: 1) 'SRR2029635' was downloaded successfully 2020-06-15T22:40:51 prefetch.2.10.7: 'SRR2029635' has 6 unresolved dependencies 2020-06-15T22:40:51 prefetch.2.10.7: 2) Downloading 'ncbi-acc:BX284601.4?vdb-ctx=refseq'... 2020-06-15T22:40:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T22:41:07 prefetch.2.10.7: HTTPS download succeed 2020-06-15T22:41:07 prefetch.2.10.7: 2) 'ncbi-acc:BX284601.4?vdb-ctx=refseq' was downloaded successfully 2020-06-15T22:41:07 prefetch.2.10.7: 3) Downloading 'ncbi-acc:BX284602.4?vdb-ctx=refseq'... 2020-06-15T22:41:07 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T22:41:22 prefetch.2.10.7: HTTPS download succeed 2020-06-15T22:41:22 prefetch.2.10.7: 3) 'ncbi-acc:BX284602.4?vdb-ctx=refseq' was downloaded successfully 2020-06-15T22:41:22 prefetch.2.10.7: 4) Downloading 'ncbi-acc:BX284603.3?vdb-ctx=refseq'... 2020-06-15T22:41:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T22:41:38 prefetch.2.10.7: HTTPS download succeed 2020-06-15T22:41:38 prefetch.2.10.7: 4) 'ncbi-acc:BX284603.3?vdb-ctx=refseq' was downloaded successfully 2020-06-15T22:41:38 prefetch.2.10.7: 5) Downloading 'ncbi-acc:BX284604.3?vdb-ctx=refseq'... 2020-06-15T22:41:38 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T22:41:54 prefetch.2.10.7: HTTPS download succeed 2020-06-15T22:41:54 prefetch.2.10.7: 5) 'ncbi-acc:BX284604.3?vdb-ctx=refseq' was downloaded successfully 2020-06-15T22:41:54 prefetch.2.10.7: 6) Downloading 'ncbi-acc:BX284605.4?vdb-ctx=refseq'... 2020-06-15T22:41:54 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T22:42:10 prefetch.2.10.7: HTTPS download succeed 2020-06-15T22:42:10 prefetch.2.10.7: 6) 'ncbi-acc:BX284605.4?vdb-ctx=refseq' was downloaded successfully 2020-06-15T22:42:10 prefetch.2.10.7: 7) Downloading 'ncbi-acc:BX284606.4?vdb-ctx=refseq'... 2020-06-15T22:42:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T22:42:26 prefetch.2.10.7: HTTPS download succeed 2020-06-15T22:42:26 prefetch.2.10.7: 7) 'ncbi-acc:BX284606.4?vdb-ctx=refseq' was downloaded successfully Read 29502971 spots for SRR2029635/SRR2029635.sra Written 29502971 spots for SRR2029635/SRR2029635.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: 00:00:01 Multiseed full-index search: 00:04:38 29502971 reads; of these: 29502971 (100.00%) were unpaired; of these: 9332 (0.03%) aligned 0 times 27552901 (93.39%) aligned exactly 1 time 1940738 (6.58%) aligned >1 times 99.97% overall alignment rate Time searching: 00:04:39 Overall time: 00:04:39 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] 1409755 / 29493639 = 0.0478 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 07:55:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.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 07:55:25: #1 read tag files... INFO @ Tue, 16 Jun 2020 07:55:25: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 07:55:31: 1000000 INFO @ Tue, 16 Jun 2020 07:55:38: 2000000 INFO @ Tue, 16 Jun 2020 07:55:44: 3000000 INFO @ Tue, 16 Jun 2020 07:55:51: 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 @ Tue, 16 Jun 2020 07:55:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.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 07:55:55: #1 read tag files... INFO @ Tue, 16 Jun 2020 07:55:55: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 07:55:58: 5000000 INFO @ Tue, 16 Jun 2020 07:56:02: 1000000 INFO @ Tue, 16 Jun 2020 07:56:05: 6000000 INFO @ Tue, 16 Jun 2020 07:56:09: 2000000 INFO @ Tue, 16 Jun 2020 07:56:12: 7000000 INFO @ Tue, 16 Jun 2020 07:56:16: 3000000 INFO @ Tue, 16 Jun 2020 07:56:19: 8000000 INFO @ Tue, 16 Jun 2020 07:56:23: 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 @ Tue, 16 Jun 2020 07:56:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.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 07:56:25: #1 read tag files... INFO @ Tue, 16 Jun 2020 07:56:25: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 07:56:26: 9000000 INFO @ Tue, 16 Jun 2020 07:56:31: 5000000 INFO @ Tue, 16 Jun 2020 07:56:32: 1000000 INFO @ Tue, 16 Jun 2020 07:56:34: 10000000 INFO @ Tue, 16 Jun 2020 07:56:38: 6000000 INFO @ Tue, 16 Jun 2020 07:56:40: 2000000 INFO @ Tue, 16 Jun 2020 07:56:42: 11000000 INFO @ Tue, 16 Jun 2020 07:56:46: 7000000 INFO @ Tue, 16 Jun 2020 07:56:47: 3000000 INFO @ Tue, 16 Jun 2020 07:56:50: 12000000 INFO @ Tue, 16 Jun 2020 07:56:54: 8000000 INFO @ Tue, 16 Jun 2020 07:56:54: 4000000 INFO @ Tue, 16 Jun 2020 07:56:58: 13000000 INFO @ Tue, 16 Jun 2020 07:57:02: 5000000 INFO @ Tue, 16 Jun 2020 07:57:02: 9000000 INFO @ Tue, 16 Jun 2020 07:57:06: 14000000 INFO @ Tue, 16 Jun 2020 07:57:09: 6000000 INFO @ Tue, 16 Jun 2020 07:57:10: 10000000 INFO @ Tue, 16 Jun 2020 07:57:14: 15000000 INFO @ Tue, 16 Jun 2020 07:57:17: 7000000 INFO @ Tue, 16 Jun 2020 07:57:18: 11000000 INFO @ Tue, 16 Jun 2020 07:57:22: 16000000 INFO @ Tue, 16 Jun 2020 07:57:25: 8000000 INFO @ Tue, 16 Jun 2020 07:57:26: 12000000 INFO @ Tue, 16 Jun 2020 07:57:30: 17000000 INFO @ Tue, 16 Jun 2020 07:57:33: 9000000 INFO @ Tue, 16 Jun 2020 07:57:34: 13000000 INFO @ Tue, 16 Jun 2020 07:57:37: 18000000 INFO @ Tue, 16 Jun 2020 07:57:41: 10000000 INFO @ Tue, 16 Jun 2020 07:57:41: 14000000 INFO @ Tue, 16 Jun 2020 07:57:45: 19000000 INFO @ Tue, 16 Jun 2020 07:57:49: 11000000 INFO @ Tue, 16 Jun 2020 07:57:49: 15000000 INFO @ Tue, 16 Jun 2020 07:57:52: 20000000 INFO @ Tue, 16 Jun 2020 07:57:57: 12000000 INFO @ Tue, 16 Jun 2020 07:57:57: 16000000 INFO @ Tue, 16 Jun 2020 07:58:00: 21000000 INFO @ Tue, 16 Jun 2020 07:58:05: 17000000 INFO @ Tue, 16 Jun 2020 07:58:05: 13000000 INFO @ Tue, 16 Jun 2020 07:58:08: 22000000 INFO @ Tue, 16 Jun 2020 07:58:13: 18000000 INFO @ Tue, 16 Jun 2020 07:58:13: 14000000 INFO @ Tue, 16 Jun 2020 07:58:15: 23000000 INFO @ Tue, 16 Jun 2020 07:58:20: 19000000 INFO @ Tue, 16 Jun 2020 07:58:21: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 07:58:23: 24000000 INFO @ Tue, 16 Jun 2020 07:58:28: 20000000 INFO @ Tue, 16 Jun 2020 07:58:29: 16000000 INFO @ Tue, 16 Jun 2020 07:58:31: 25000000 INFO @ Tue, 16 Jun 2020 07:58:36: 21000000 INFO @ Tue, 16 Jun 2020 07:58:37: 17000000 INFO @ Tue, 16 Jun 2020 07:58:38: 26000000 INFO @ Tue, 16 Jun 2020 07:58:44: 22000000 INFO @ Tue, 16 Jun 2020 07:58:45: 18000000 INFO @ Tue, 16 Jun 2020 07:58:46: 27000000 INFO @ Tue, 16 Jun 2020 07:58:51: 23000000 INFO @ Tue, 16 Jun 2020 07:58:53: 19000000 INFO @ Tue, 16 Jun 2020 07:58:53: 28000000 INFO @ Tue, 16 Jun 2020 07:58:54: #1 tag size is determined as 51 bps INFO @ Tue, 16 Jun 2020 07:58:54: #1 tag size = 51 INFO @ Tue, 16 Jun 2020 07:58:54: #1 total tags in treatment: 28083884 INFO @ Tue, 16 Jun 2020 07:58:54: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 07:58:54: #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 07:58:55: #1 tags after filtering in treatment: 28083884 INFO @ Tue, 16 Jun 2020 07:58:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 07:58:55: #1 finished! INFO @ Tue, 16 Jun 2020 07:58:55: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 07:58:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 07:58:56: #2 number of paired peaks: 5 WARNING @ Tue, 16 Jun 2020 07:58:56: Too few paired peaks (5) 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 07:58:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.05_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/SRX1030169/SRX1030169.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 07:59:00: 24000000 INFO @ Tue, 16 Jun 2020 07:59:01: 20000000 INFO @ Tue, 16 Jun 2020 07:59:08: 25000000 INFO @ Tue, 16 Jun 2020 07:59:09: 21000000 INFO @ Tue, 16 Jun 2020 07:59:15: 26000000 INFO @ Tue, 16 Jun 2020 07:59:17: 22000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 07:59:23: 27000000 INFO @ Tue, 16 Jun 2020 07:59:25: 23000000 INFO @ Tue, 16 Jun 2020 07:59:31: 28000000 INFO @ Tue, 16 Jun 2020 07:59:32: #1 tag size is determined as 51 bps INFO @ Tue, 16 Jun 2020 07:59:32: #1 tag size = 51 INFO @ Tue, 16 Jun 2020 07:59:32: #1 total tags in treatment: 28083884 INFO @ Tue, 16 Jun 2020 07:59:32: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 07:59:32: #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 07:59:32: #1 tags after filtering in treatment: 28083884 INFO @ Tue, 16 Jun 2020 07:59:32: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 07:59:32: #1 finished! INFO @ Tue, 16 Jun 2020 07:59:32: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 07:59:32: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 07:59:32: 24000000 INFO @ Tue, 16 Jun 2020 07:59:34: #2 number of paired peaks: 5 WARNING @ Tue, 16 Jun 2020 07:59:34: Too few paired peaks (5) 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 07:59:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.10_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/SRX1030169/SRX1030169.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 07:59:40: 25000000 INFO @ Tue, 16 Jun 2020 07:59:47: 26000000 INFO @ Tue, 16 Jun 2020 07:59:54: 27000000 INFO @ Tue, 16 Jun 2020 08:00:01: 28000000 INFO @ Tue, 16 Jun 2020 08:00:01: #1 tag size is determined as 51 bps INFO @ Tue, 16 Jun 2020 08:00:01: #1 tag size = 51 INFO @ Tue, 16 Jun 2020 08:00:01: #1 total tags in treatment: 28083884 INFO @ Tue, 16 Jun 2020 08:00:01: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:00:01: #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 08:00:02: #1 tags after filtering in treatment: 28083884 INFO @ Tue, 16 Jun 2020 08:00:02: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:00:02: #1 finished! INFO @ Tue, 16 Jun 2020 08:00:02: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:00:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:00:03: #2 number of paired peaks: 5 WARNING @ Tue, 16 Jun 2020 08:00:03: Too few paired peaks (5) 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 08:00:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.20_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/SRX1030169/SRX1030169.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX1030169/SRX1030169.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling