Job ID = 6527577 SRX = SRX1149356 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:39:57 prefetch.2.10.7: 1) Downloading 'SRR2162760'... 2020-06-29T12:39:57 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:41:09 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:41:10 prefetch.2.10.7: 'SRR2162760' is valid 2020-06-29T12:41:10 prefetch.2.10.7: 1) 'SRR2162760' was downloaded successfully 2020-06-29T12:42:02 prefetch.2.10.7: 'SRR2162760' has 10 unresolved dependencies 2020-06-29T12:42:02 prefetch.2.10.7: 2) Downloading 'ncbi-acc:NC_004353.3?vdb-ctx=refseq'... 2020-06-29T12:42:02 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:42:14 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:42:14 prefetch.2.10.7: 2) 'ncbi-acc:NC_004353.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:42:14 prefetch.2.10.7: 3) Downloading 'ncbi-acc:NC_004354.3?vdb-ctx=refseq'... 2020-06-29T12:42:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:42:26 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:42:26 prefetch.2.10.7: 3) 'ncbi-acc:NC_004354.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:42:26 prefetch.2.10.7: 4) Downloading 'ncbi-acc:NS_000188.1?vdb-ctx=refseq'... 2020-06-29T12:42:26 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:42:41 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:42:41 prefetch.2.10.7: 4) 'ncbi-acc:NS_000188.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:42:41 prefetch.2.10.7: 5) Downloading 'ncbi-acc:NT_033777.2?vdb-ctx=refseq'... 2020-06-29T12:42:41 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:42:55 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:42:55 prefetch.2.10.7: 5) 'ncbi-acc:NT_033777.2?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:42:55 prefetch.2.10.7: 6) Downloading 'ncbi-acc:NT_033778.3?vdb-ctx=refseq'... 2020-06-29T12:42:55 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:43:07 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:43:07 prefetch.2.10.7: 6) 'ncbi-acc:NT_033778.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:43:07 prefetch.2.10.7: 7) Downloading 'ncbi-acc:NT_033779.4?vdb-ctx=refseq'... 2020-06-29T12:43:07 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:43:20 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:43:20 prefetch.2.10.7: 7) 'ncbi-acc:NT_033779.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:43:20 prefetch.2.10.7: 8) Downloading 'ncbi-acc:NT_037436.3?vdb-ctx=refseq'... 2020-06-29T12:43:20 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:43:33 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:43:33 prefetch.2.10.7: 8) 'ncbi-acc:NT_037436.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:43:33 prefetch.2.10.7: 9) Downloading 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq'... 2020-06-29T12:43:33 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:43:46 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:43:46 prefetch.2.10.7: 9) 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:43:46 prefetch.2.10.7: 10) Downloading 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq'... 2020-06-29T12:43:46 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:43:56 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:43:56 prefetch.2.10.7: 10) 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:43:56 prefetch.2.10.7: 11) Downloading 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq'... 2020-06-29T12:43:56 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:44:06 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:44:06 prefetch.2.10.7: 11) 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq' was downloaded successfully Read 24778333 spots for SRR2162760/SRR2162760.sra Written 24778333 spots for SRR2162760/SRR2162760.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: 00:08:15 24778333 reads; of these: 24778333 (100.00%) were unpaired; of these: 497251 (2.01%) aligned 0 times 16193161 (65.35%) aligned exactly 1 time 8087921 (32.64%) aligned >1 times 97.99% overall alignment rate Time searching: 00:08:15 Overall time: 00:08:15 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 2630866 / 24281082 = 0.1084 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 @ Mon, 29 Jun 2020 22:08:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.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 @ Mon, 29 Jun 2020 22:08:47: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:08:47: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:08:53: 1000000 INFO @ Mon, 29 Jun 2020 22:08:59: 2000000 INFO @ Mon, 29 Jun 2020 22:09:06: 3000000 INFO @ Mon, 29 Jun 2020 22:09:12: 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 @ Mon, 29 Jun 2020 22:09:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.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 @ Mon, 29 Jun 2020 22:09:17: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:09:17: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:09:18: 5000000 INFO @ Mon, 29 Jun 2020 22:09:24: 1000000 INFO @ Mon, 29 Jun 2020 22:09:26: 6000000 INFO @ Mon, 29 Jun 2020 22:09:31: 2000000 INFO @ Mon, 29 Jun 2020 22:09:33: 7000000 INFO @ Mon, 29 Jun 2020 22:09:38: 3000000 INFO @ Mon, 29 Jun 2020 22:09:40: 8000000 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 @ Mon, 29 Jun 2020 22:09:45: 4000000 INFO @ Mon, 29 Jun 2020 22:09:47: 9000000 INFO @ Mon, 29 Jun 2020 22:09:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.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 @ Mon, 29 Jun 2020 22:09:47: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:09:47: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:09:52: 5000000 INFO @ Mon, 29 Jun 2020 22:09:53: 1000000 INFO @ Mon, 29 Jun 2020 22:09:54: 10000000 INFO @ Mon, 29 Jun 2020 22:09:59: 6000000 INFO @ Mon, 29 Jun 2020 22:10:00: 2000000 INFO @ Mon, 29 Jun 2020 22:10:00: 11000000 INFO @ Mon, 29 Jun 2020 22:10:06: 3000000 INFO @ Mon, 29 Jun 2020 22:10:07: 7000000 INFO @ Mon, 29 Jun 2020 22:10:07: 12000000 INFO @ Mon, 29 Jun 2020 22:10:12: 4000000 INFO @ Mon, 29 Jun 2020 22:10:14: 8000000 INFO @ Mon, 29 Jun 2020 22:10:14: 13000000 INFO @ Mon, 29 Jun 2020 22:10:19: 5000000 INFO @ Mon, 29 Jun 2020 22:10:21: 9000000 INFO @ Mon, 29 Jun 2020 22:10:21: 14000000 INFO @ Mon, 29 Jun 2020 22:10:25: 6000000 INFO @ Mon, 29 Jun 2020 22:10:28: 10000000 INFO @ Mon, 29 Jun 2020 22:10:29: 15000000 INFO @ Mon, 29 Jun 2020 22:10:31: 7000000 INFO @ Mon, 29 Jun 2020 22:10:35: 11000000 INFO @ Mon, 29 Jun 2020 22:10:36: 16000000 INFO @ Mon, 29 Jun 2020 22:10:37: 8000000 INFO @ Mon, 29 Jun 2020 22:10:42: 12000000 INFO @ Mon, 29 Jun 2020 22:10:43: 17000000 INFO @ Mon, 29 Jun 2020 22:10:44: 9000000 INFO @ Mon, 29 Jun 2020 22:10:49: 13000000 INFO @ Mon, 29 Jun 2020 22:10:49: 18000000 INFO @ Mon, 29 Jun 2020 22:10:50: 10000000 INFO @ Mon, 29 Jun 2020 22:10:56: 14000000 INFO @ Mon, 29 Jun 2020 22:10:56: 11000000 INFO @ Mon, 29 Jun 2020 22:10:56: 19000000 INFO @ Mon, 29 Jun 2020 22:11:03: 15000000 INFO @ Mon, 29 Jun 2020 22:11:03: 12000000 INFO @ Mon, 29 Jun 2020 22:11:03: 20000000 INFO @ Mon, 29 Jun 2020 22:11:09: 13000000 INFO @ Mon, 29 Jun 2020 22:11:10: 16000000 INFO @ Mon, 29 Jun 2020 22:11:10: 21000000 INFO @ Mon, 29 Jun 2020 22:11:15: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:11:15: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:11:15: #1 total tags in treatment: 21650216 INFO @ Mon, 29 Jun 2020 22:11:15: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:11:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:11:15: 14000000 INFO @ Mon, 29 Jun 2020 22:11:16: #1 tags after filtering in treatment: 21650216 INFO @ Mon, 29 Jun 2020 22:11:16: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:11:16: #1 finished! INFO @ Mon, 29 Jun 2020 22:11:16: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:11:16: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:11:17: #2 number of paired peaks: 34 WARNING @ Mon, 29 Jun 2020 22:11:17: Too few paired peaks (34) 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 @ Mon, 29 Jun 2020 22:11:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.05_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/dm3/SRX1149356/SRX1149356.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:11:17: 17000000 INFO @ Mon, 29 Jun 2020 22:11:22: 15000000 INFO @ Mon, 29 Jun 2020 22:11:25: 18000000 INFO @ Mon, 29 Jun 2020 22:11:28: 16000000 INFO @ Mon, 29 Jun 2020 22:11:32: 19000000 INFO @ Mon, 29 Jun 2020 22:11:34: 17000000 INFO @ Mon, 29 Jun 2020 22:11:39: 20000000 INFO @ Mon, 29 Jun 2020 22:11:41: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:11:46: 21000000 INFO @ Mon, 29 Jun 2020 22:11:48: 19000000 INFO @ Mon, 29 Jun 2020 22:11:51: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:11:51: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:11:51: #1 total tags in treatment: 21650216 INFO @ Mon, 29 Jun 2020 22:11:51: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:11:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:11:51: #1 tags after filtering in treatment: 21650216 INFO @ Mon, 29 Jun 2020 22:11:51: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:11:51: #1 finished! INFO @ Mon, 29 Jun 2020 22:11:51: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:11:51: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:11:53: #2 number of paired peaks: 34 WARNING @ Mon, 29 Jun 2020 22:11:53: Too few paired peaks (34) 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 @ Mon, 29 Jun 2020 22:11:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:11:55: 20000000 INFO @ Mon, 29 Jun 2020 22:12:02: 21000000 INFO @ Mon, 29 Jun 2020 22:12:06: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:12:06: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:12:06: #1 total tags in treatment: 21650216 INFO @ Mon, 29 Jun 2020 22:12:06: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:12:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:12:07: #1 tags after filtering in treatment: 21650216 INFO @ Mon, 29 Jun 2020 22:12:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:12:07: #1 finished! INFO @ Mon, 29 Jun 2020 22:12:07: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:12:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:12:08: #2 number of paired peaks: 34 WARNING @ Mon, 29 Jun 2020 22:12:08: Too few paired peaks (34) 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 @ Mon, 29 Jun 2020 22:12:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.20_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/dm3/SRX1149356/SRX1149356.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1149356/SRX1149356.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。