Job ID = 6455852 SRX = SRX3011256 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:20:06 prefetch.2.10.7: 1) Downloading 'SRR5834733'... 2020-06-21T10:20:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:26:28 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:26:28 prefetch.2.10.7: 1) 'SRR5834733' was downloaded successfully 2020-06-21T10:27:20 prefetch.2.10.7: 'SRR5834733' has 10 unresolved dependencies 2020-06-21T10:27:20 prefetch.2.10.7: 2) Downloading 'ncbi-acc:NC_004353.3?vdb-ctx=refseq'... 2020-06-21T10:27:20 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:27:32 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:27:32 prefetch.2.10.7: 2) 'ncbi-acc:NC_004353.3?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:27:32 prefetch.2.10.7: 3) Downloading 'ncbi-acc:NC_004354.3?vdb-ctx=refseq'... 2020-06-21T10:27:32 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:27:50 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:27:50 prefetch.2.10.7: 3) 'ncbi-acc:NC_004354.3?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:27:50 prefetch.2.10.7: 4) Downloading 'ncbi-acc:NS_000188.1?vdb-ctx=refseq'... 2020-06-21T10:27:50 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:28:05 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:28:05 prefetch.2.10.7: 4) 'ncbi-acc:NS_000188.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:28:05 prefetch.2.10.7: 5) Downloading 'ncbi-acc:NT_033777.2?vdb-ctx=refseq'... 2020-06-21T10:28:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:28:22 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:28:22 prefetch.2.10.7: 5) 'ncbi-acc:NT_033777.2?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:28:22 prefetch.2.10.7: 6) Downloading 'ncbi-acc:NT_033778.3?vdb-ctx=refseq'... 2020-06-21T10:28:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:28:43 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:28:43 prefetch.2.10.7: 6) 'ncbi-acc:NT_033778.3?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:28:43 prefetch.2.10.7: 7) Downloading 'ncbi-acc:NT_033779.4?vdb-ctx=refseq'... 2020-06-21T10:28:43 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:29:01 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:29:01 prefetch.2.10.7: 7) 'ncbi-acc:NT_033779.4?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:29:01 prefetch.2.10.7: 8) Downloading 'ncbi-acc:NT_037436.3?vdb-ctx=refseq'... 2020-06-21T10:29:01 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:29:20 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:29:20 prefetch.2.10.7: 8) 'ncbi-acc:NT_037436.3?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:29:20 prefetch.2.10.7: 9) Downloading 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq'... 2020-06-21T10:29:20 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:29:32 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:29:32 prefetch.2.10.7: 9) 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:29:32 prefetch.2.10.7: 10) Downloading 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq'... 2020-06-21T10:29:32 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:29:45 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:29:45 prefetch.2.10.7: 10) 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:29:45 prefetch.2.10.7: 11) Downloading 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq'... 2020-06-21T10:29:45 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:29:59 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:29:59 prefetch.2.10.7: 11) 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq' was downloaded successfully Read 50092908 spots for SRR5834733/SRR5834733.sra Written 50092908 spots for SRR5834733/SRR5834733.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: 00:06:37 50092908 reads; of these: 50092908 (100.00%) were unpaired; of these: 1444751 (2.88%) aligned 0 times 47097527 (94.02%) aligned exactly 1 time 1550630 (3.10%) aligned >1 times 97.12% overall alignment rate Time searching: 00:06:38 Overall time: 00:06:38 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 20 files... [bam_rmdupse_core] 27181783 / 48648157 = 0.5587 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 @ Sun, 21 Jun 2020 19:47:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Sun, 21 Jun 2020 19:47:39: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:47:39: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:47:45: 1000000 INFO @ Sun, 21 Jun 2020 19:47:50: 2000000 INFO @ Sun, 21 Jun 2020 19:47:55: 3000000 INFO @ Sun, 21 Jun 2020 19:48:01: 4000000 INFO @ Sun, 21 Jun 2020 19:48:06: 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 @ Sun, 21 Jun 2020 19:48:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Sun, 21 Jun 2020 19:48:09: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:48:09: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:48:12: 6000000 INFO @ Sun, 21 Jun 2020 19:48:16: 1000000 INFO @ Sun, 21 Jun 2020 19:48:19: 7000000 INFO @ Sun, 21 Jun 2020 19:48:22: 2000000 INFO @ Sun, 21 Jun 2020 19:48:25: 8000000 INFO @ Sun, 21 Jun 2020 19:48:29: 3000000 INFO @ Sun, 21 Jun 2020 19:48:31: 9000000 INFO @ Sun, 21 Jun 2020 19:48:35: 4000000 BedGraph に変換中... INFO @ Sun, 21 Jun 2020 19:48:37: 10000000 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 @ Sun, 21 Jun 2020 19:48:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Sun, 21 Jun 2020 19:48:40: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:48:40: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:48:42: 5000000 INFO @ Sun, 21 Jun 2020 19:48:44: 11000000 INFO @ Sun, 21 Jun 2020 19:48:47: 1000000 INFO @ Sun, 21 Jun 2020 19:48:49: 6000000 INFO @ Sun, 21 Jun 2020 19:48:50: 12000000 INFO @ Sun, 21 Jun 2020 19:48:54: 2000000 INFO @ Sun, 21 Jun 2020 19:48:55: 7000000 INFO @ Sun, 21 Jun 2020 19:48:57: 13000000 INFO @ Sun, 21 Jun 2020 19:49:01: 3000000 INFO @ Sun, 21 Jun 2020 19:49:02: 8000000 INFO @ Sun, 21 Jun 2020 19:49:03: 14000000 INFO @ Sun, 21 Jun 2020 19:49:08: 9000000 INFO @ Sun, 21 Jun 2020 19:49:09: 4000000 INFO @ Sun, 21 Jun 2020 19:49:09: 15000000 INFO @ Sun, 21 Jun 2020 19:49:14: 10000000 INFO @ Sun, 21 Jun 2020 19:49:16: 16000000 INFO @ Sun, 21 Jun 2020 19:49:16: 5000000 INFO @ Sun, 21 Jun 2020 19:49:21: 11000000 INFO @ Sun, 21 Jun 2020 19:49:22: 17000000 INFO @ Sun, 21 Jun 2020 19:49:23: 6000000 INFO @ Sun, 21 Jun 2020 19:49:27: 12000000 INFO @ Sun, 21 Jun 2020 19:49:29: 18000000 INFO @ Sun, 21 Jun 2020 19:49:31: 7000000 INFO @ Sun, 21 Jun 2020 19:49:34: 13000000 INFO @ Sun, 21 Jun 2020 19:49:35: 19000000 INFO @ Sun, 21 Jun 2020 19:49:38: 8000000 INFO @ Sun, 21 Jun 2020 19:49:40: 14000000 INFO @ Sun, 21 Jun 2020 19:49:42: 20000000 INFO @ Sun, 21 Jun 2020 19:49:44: 9000000 INFO @ Sun, 21 Jun 2020 19:49:46: 15000000 INFO @ Sun, 21 Jun 2020 19:49:48: 21000000 INFO @ Sun, 21 Jun 2020 19:49:51: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:49:51: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:49:51: #1 total tags in treatment: 21466374 INFO @ Sun, 21 Jun 2020 19:49:51: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:49:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 19:49:52: 10000000 INFO @ Sun, 21 Jun 2020 19:49:52: #1 tags after filtering in treatment: 21466008 INFO @ Sun, 21 Jun 2020 19:49:52: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:49:52: #1 finished! INFO @ Sun, 21 Jun 2020 19:49:52: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:49:52: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:49:52: 16000000 INFO @ Sun, 21 Jun 2020 19:49:53: #2 number of paired peaks: 81 WARNING @ Sun, 21 Jun 2020 19:49:53: Too few paired peaks (81) 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 @ Sun, 21 Jun 2020 19:49:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.05_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/dm6/SRX3011256/SRX3011256.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:49:59: 11000000 INFO @ Sun, 21 Jun 2020 19:49:59: 17000000 INFO @ Sun, 21 Jun 2020 19:50:05: 18000000 INFO @ Sun, 21 Jun 2020 19:50:06: 12000000 INFO @ Sun, 21 Jun 2020 19:50:12: 19000000 INFO @ Sun, 21 Jun 2020 19:50:13: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:50:18: 20000000 INFO @ Sun, 21 Jun 2020 19:50:20: 14000000 INFO @ Sun, 21 Jun 2020 19:50:25: 21000000 INFO @ Sun, 21 Jun 2020 19:50:26: 15000000 INFO @ Sun, 21 Jun 2020 19:50:28: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:50:28: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:50:28: #1 total tags in treatment: 21466374 INFO @ Sun, 21 Jun 2020 19:50:28: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:50:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 19:50:28: #1 tags after filtering in treatment: 21466008 INFO @ Sun, 21 Jun 2020 19:50:28: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:50:28: #1 finished! INFO @ Sun, 21 Jun 2020 19:50:28: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:50:28: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:50:30: #2 number of paired peaks: 81 WARNING @ Sun, 21 Jun 2020 19:50:30: Too few paired peaks (81) 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 @ Sun, 21 Jun 2020 19:50:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:50:33: 16000000 INFO @ Sun, 21 Jun 2020 19:50:39: 17000000 INFO @ Sun, 21 Jun 2020 19:50:46: 18000000 INFO @ Sun, 21 Jun 2020 19:50:53: 19000000 INFO @ Sun, 21 Jun 2020 19:50:59: 20000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:51:06: 21000000 INFO @ Sun, 21 Jun 2020 19:51:09: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:51:09: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:51:09: #1 total tags in treatment: 21466374 INFO @ Sun, 21 Jun 2020 19:51:09: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:51:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 19:51:10: #1 tags after filtering in treatment: 21466008 INFO @ Sun, 21 Jun 2020 19:51:10: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:51:10: #1 finished! INFO @ Sun, 21 Jun 2020 19:51:10: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:51:10: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:51:11: #2 number of paired peaks: 81 WARNING @ Sun, 21 Jun 2020 19:51:11: Too few paired peaks (81) 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 @ Sun, 21 Jun 2020 19:51:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.20_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/dm6/SRX3011256/SRX3011256.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011256/SRX3011256.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling