Job ID = 6455849 SRX = SRX3011253 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:16:06 prefetch.2.10.7: 1) Downloading 'SRR5834730'... 2020-06-21T10:16:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:22:15 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:22:15 prefetch.2.10.7: 1) 'SRR5834730' was downloaded successfully 2020-06-21T10:23:06 prefetch.2.10.7: 'SRR5834730' has 10 unresolved dependencies 2020-06-21T10:23:06 prefetch.2.10.7: 2) Downloading 'ncbi-acc:NC_004353.3?vdb-ctx=refseq'... 2020-06-21T10:23:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:23:19 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:23:19 prefetch.2.10.7: 2) 'ncbi-acc:NC_004353.3?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:23:19 prefetch.2.10.7: 3) Downloading 'ncbi-acc:NC_004354.3?vdb-ctx=refseq'... 2020-06-21T10:23:19 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:23:37 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:23:37 prefetch.2.10.7: 3) 'ncbi-acc:NC_004354.3?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:23:37 prefetch.2.10.7: 4) Downloading 'ncbi-acc:NS_000188.1?vdb-ctx=refseq'... 2020-06-21T10:23:37 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:23:52 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:23:52 prefetch.2.10.7: 4) 'ncbi-acc:NS_000188.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:23:52 prefetch.2.10.7: 5) Downloading 'ncbi-acc:NT_033777.2?vdb-ctx=refseq'... 2020-06-21T10:23:52 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:24:10 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:24:10 prefetch.2.10.7: 5) 'ncbi-acc:NT_033777.2?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:24:10 prefetch.2.10.7: 6) Downloading 'ncbi-acc:NT_033778.3?vdb-ctx=refseq'... 2020-06-21T10:24:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:24:26 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:24:26 prefetch.2.10.7: 6) 'ncbi-acc:NT_033778.3?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:24:26 prefetch.2.10.7: 7) Downloading 'ncbi-acc:NT_033779.4?vdb-ctx=refseq'... 2020-06-21T10:24:26 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:24:43 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:24:43 prefetch.2.10.7: 7) 'ncbi-acc:NT_033779.4?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:24:43 prefetch.2.10.7: 8) Downloading 'ncbi-acc:NT_037436.3?vdb-ctx=refseq'... 2020-06-21T10:24:43 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:25:01 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:25:01 prefetch.2.10.7: 8) 'ncbi-acc:NT_037436.3?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:25:01 prefetch.2.10.7: 9) Downloading 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq'... 2020-06-21T10:25:01 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:25:16 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:25:16 prefetch.2.10.7: 9) 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:25:16 prefetch.2.10.7: 10) Downloading 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq'... 2020-06-21T10:25:16 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:25:28 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:25:28 prefetch.2.10.7: 10) 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:25:28 prefetch.2.10.7: 11) Downloading 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq'... 2020-06-21T10:25:28 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:25:41 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:25:41 prefetch.2.10.7: 11) 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq' was downloaded successfully Read 41350758 spots for SRR5834730/SRR5834730.sra Written 41350758 spots for SRR5834730/SRR5834730.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: 00:05:54 41350758 reads; of these: 41350758 (100.00%) were unpaired; of these: 1497002 (3.62%) aligned 0 times 38163042 (92.29%) aligned exactly 1 time 1690714 (4.09%) aligned >1 times 96.38% overall alignment rate Time searching: 00:05:54 Overall time: 00:05:54 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] 18081353 / 39853756 = 0.4537 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 19:42:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.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 19:42:27: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:42:27: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:42:32: 1000000 INFO @ Sun, 21 Jun 2020 19:42:37: 2000000 INFO @ Sun, 21 Jun 2020 19:42:42: 3000000 INFO @ Sun, 21 Jun 2020 19:42:48: 4000000 INFO @ Sun, 21 Jun 2020 19:42:53: 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 19:42:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.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 19:42:57: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:42:57: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:42:58: 6000000 INFO @ Sun, 21 Jun 2020 19:43:02: 1000000 INFO @ Sun, 21 Jun 2020 19:43:04: 7000000 INFO @ Sun, 21 Jun 2020 19:43:08: 2000000 INFO @ Sun, 21 Jun 2020 19:43:10: 8000000 INFO @ Sun, 21 Jun 2020 19:43:14: 3000000 INFO @ Sun, 21 Jun 2020 19:43:15: 9000000 INFO @ Sun, 21 Jun 2020 19:43:19: 4000000 INFO @ Sun, 21 Jun 2020 19:43:21: 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 @ Sun, 21 Jun 2020 19:43:25: 5000000 INFO @ Sun, 21 Jun 2020 19:43:26: 11000000 INFO @ Sun, 21 Jun 2020 19:43:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.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 19:43:27: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:43:27: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:43:31: 6000000 INFO @ Sun, 21 Jun 2020 19:43:32: 12000000 INFO @ Sun, 21 Jun 2020 19:43:32: 1000000 INFO @ Sun, 21 Jun 2020 19:43:36: 7000000 INFO @ Sun, 21 Jun 2020 19:43:38: 13000000 INFO @ Sun, 21 Jun 2020 19:43:38: 2000000 INFO @ Sun, 21 Jun 2020 19:43:42: 8000000 INFO @ Sun, 21 Jun 2020 19:43:43: 14000000 INFO @ Sun, 21 Jun 2020 19:43:44: 3000000 INFO @ Sun, 21 Jun 2020 19:43:48: 9000000 INFO @ Sun, 21 Jun 2020 19:43:49: 15000000 INFO @ Sun, 21 Jun 2020 19:43:50: 4000000 INFO @ Sun, 21 Jun 2020 19:43:54: 10000000 INFO @ Sun, 21 Jun 2020 19:43:55: 16000000 INFO @ Sun, 21 Jun 2020 19:43:55: 5000000 INFO @ Sun, 21 Jun 2020 19:44:00: 11000000 INFO @ Sun, 21 Jun 2020 19:44:01: 17000000 INFO @ Sun, 21 Jun 2020 19:44:01: 6000000 INFO @ Sun, 21 Jun 2020 19:44:05: 12000000 INFO @ Sun, 21 Jun 2020 19:44:06: 18000000 INFO @ Sun, 21 Jun 2020 19:44:07: 7000000 INFO @ Sun, 21 Jun 2020 19:44:11: 13000000 INFO @ Sun, 21 Jun 2020 19:44:12: 19000000 INFO @ Sun, 21 Jun 2020 19:44:13: 8000000 INFO @ Sun, 21 Jun 2020 19:44:17: 14000000 INFO @ Sun, 21 Jun 2020 19:44:18: 20000000 INFO @ Sun, 21 Jun 2020 19:44:18: 9000000 INFO @ Sun, 21 Jun 2020 19:44:23: 15000000 INFO @ Sun, 21 Jun 2020 19:44:24: 21000000 INFO @ Sun, 21 Jun 2020 19:44:24: 10000000 INFO @ Sun, 21 Jun 2020 19:44:28: 16000000 INFO @ Sun, 21 Jun 2020 19:44:28: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:44:28: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:44:28: #1 total tags in treatment: 21772403 INFO @ Sun, 21 Jun 2020 19:44:28: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:44:28: #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 19:44:29: #1 tags after filtering in treatment: 21771983 INFO @ Sun, 21 Jun 2020 19:44:29: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:44:29: #1 finished! INFO @ Sun, 21 Jun 2020 19:44:29: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:44:29: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:44:30: 11000000 INFO @ Sun, 21 Jun 2020 19:44:30: #2 number of paired peaks: 11 WARNING @ Sun, 21 Jun 2020 19:44:30: Too few paired peaks (11) 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 19:44:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.05_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/SRX3011253/SRX3011253.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:44:34: 17000000 INFO @ Sun, 21 Jun 2020 19:44:36: 12000000 INFO @ Sun, 21 Jun 2020 19:44:40: 18000000 INFO @ Sun, 21 Jun 2020 19:44:41: 13000000 INFO @ Sun, 21 Jun 2020 19:44:46: 19000000 INFO @ Sun, 21 Jun 2020 19:44:47: 14000000 INFO @ Sun, 21 Jun 2020 19:44:52: 20000000 INFO @ Sun, 21 Jun 2020 19:44:52: 15000000 INFO @ Sun, 21 Jun 2020 19:44:57: 21000000 INFO @ Sun, 21 Jun 2020 19:44:58: 16000000 INFO @ Sun, 21 Jun 2020 19:45:02: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:45:02: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:45:02: #1 total tags in treatment: 21772403 INFO @ Sun, 21 Jun 2020 19:45:02: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:45:02: #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 19:45:03: #1 tags after filtering in treatment: 21771983 INFO @ Sun, 21 Jun 2020 19:45:03: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:45:03: #1 finished! INFO @ Sun, 21 Jun 2020 19:45:03: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:45:03: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:45:04: 17000000 INFO @ Sun, 21 Jun 2020 19:45:04: #2 number of paired peaks: 11 WARNING @ Sun, 21 Jun 2020 19:45:04: Too few paired peaks (11) 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 19:45:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.10_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/dm6/SRX3011253/SRX3011253.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:45:09: 18000000 INFO @ Sun, 21 Jun 2020 19:45:15: 19000000 INFO @ Sun, 21 Jun 2020 19:45:20: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:45:26: 21000000 INFO @ Sun, 21 Jun 2020 19:45:30: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:45:30: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:45:30: #1 total tags in treatment: 21772403 INFO @ Sun, 21 Jun 2020 19:45:30: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:45:30: #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 19:45:31: #1 tags after filtering in treatment: 21771983 INFO @ Sun, 21 Jun 2020 19:45:31: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:45:31: #1 finished! INFO @ Sun, 21 Jun 2020 19:45:31: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:45:31: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:45:32: #2 number of paired peaks: 11 WARNING @ Sun, 21 Jun 2020 19:45:32: Too few paired peaks (11) 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 19:45:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.20_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/SRX3011253/SRX3011253.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011253/SRX3011253.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。