Job ID = 6455816 SRX = SRX3011226 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:17:51 prefetch.2.10.7: 1) Downloading 'SRR5834703'... 2020-06-21T10:17:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:21:27 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:21:27 prefetch.2.10.7: 1) 'SRR5834703' was downloaded successfully 2020-06-21T10:22:19 prefetch.2.10.7: 'SRR5834703' has 10 unresolved dependencies 2020-06-21T10:22:19 prefetch.2.10.7: 2) Downloading 'ncbi-acc:NC_004353.3?vdb-ctx=refseq'... 2020-06-21T10:22:19 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:22:32 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:22:32 prefetch.2.10.7: 2) 'ncbi-acc:NC_004353.3?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:22:32 prefetch.2.10.7: 3) Downloading 'ncbi-acc:NC_004354.3?vdb-ctx=refseq'... 2020-06-21T10:22:32 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:22:49 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:22:49 prefetch.2.10.7: 3) 'ncbi-acc:NC_004354.3?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:22:49 prefetch.2.10.7: 4) Downloading 'ncbi-acc:NS_000188.1?vdb-ctx=refseq'... 2020-06-21T10:22:49 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:23:04 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:23:04 prefetch.2.10.7: 4) 'ncbi-acc:NS_000188.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:23:04 prefetch.2.10.7: 5) Downloading 'ncbi-acc:NT_033777.2?vdb-ctx=refseq'... 2020-06-21T10:23:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:23:21 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:23:21 prefetch.2.10.7: 5) 'ncbi-acc:NT_033777.2?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:23:21 prefetch.2.10.7: 6) Downloading 'ncbi-acc:NT_033778.3?vdb-ctx=refseq'... 2020-06-21T10:23:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:23:38 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:23:38 prefetch.2.10.7: 6) 'ncbi-acc:NT_033778.3?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:23:38 prefetch.2.10.7: 7) Downloading 'ncbi-acc:NT_033779.4?vdb-ctx=refseq'... 2020-06-21T10:23:38 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:23:57 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:23:57 prefetch.2.10.7: 7) 'ncbi-acc:NT_033779.4?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:23:57 prefetch.2.10.7: 8) Downloading 'ncbi-acc:NT_037436.3?vdb-ctx=refseq'... 2020-06-21T10:23:57 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:24:13 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:24:13 prefetch.2.10.7: 8) 'ncbi-acc:NT_037436.3?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:24:13 prefetch.2.10.7: 9) Downloading 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq'... 2020-06-21T10:24:13 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: 9) 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:24:26 prefetch.2.10.7: 10) Downloading 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq'... 2020-06-21T10:24:26 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:24:39 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:24:39 prefetch.2.10.7: 10) 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T10:24:39 prefetch.2.10.7: 11) Downloading 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq'... 2020-06-21T10:24:39 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:24:53 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:24:53 prefetch.2.10.7: 11) 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq' was downloaded successfully Read 29094987 spots for SRR5834703/SRR5834703.sra Written 29094987 spots for SRR5834703/SRR5834703.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: 00:04:06 29094987 reads; of these: 29094987 (100.00%) were unpaired; of these: 515203 (1.77%) aligned 0 times 27553870 (94.70%) aligned exactly 1 time 1025914 (3.53%) aligned >1 times 98.23% overall alignment rate Time searching: 00:04:06 Overall time: 00:04:06 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 12 files... [bam_rmdupse_core] 9595904 / 28579784 = 0.3358 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 19:36:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.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 19:36:31: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:36:31: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:36:39: 1000000 INFO @ Sun, 21 Jun 2020 19:36:46: 2000000 INFO @ Sun, 21 Jun 2020 19:36:54: 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 @ Sun, 21 Jun 2020 19:37:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.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 19:37:01: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:37:01: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:37:01: 4000000 INFO @ Sun, 21 Jun 2020 19:37:08: 1000000 INFO @ Sun, 21 Jun 2020 19:37:09: 5000000 INFO @ Sun, 21 Jun 2020 19:37:16: 2000000 INFO @ Sun, 21 Jun 2020 19:37:18: 6000000 INFO @ Sun, 21 Jun 2020 19:37:24: 3000000 INFO @ Sun, 21 Jun 2020 19:37:26: 7000000 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 19:37:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.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 19:37:31: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:37:31: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:37:31: 4000000 INFO @ Sun, 21 Jun 2020 19:37:35: 8000000 INFO @ Sun, 21 Jun 2020 19:37:38: 1000000 INFO @ Sun, 21 Jun 2020 19:37:39: 5000000 INFO @ Sun, 21 Jun 2020 19:37:43: 9000000 INFO @ Sun, 21 Jun 2020 19:37:46: 2000000 INFO @ Sun, 21 Jun 2020 19:37:46: 6000000 INFO @ Sun, 21 Jun 2020 19:37:51: 10000000 INFO @ Sun, 21 Jun 2020 19:37:53: 3000000 INFO @ Sun, 21 Jun 2020 19:37:53: 7000000 INFO @ Sun, 21 Jun 2020 19:37:59: 11000000 INFO @ Sun, 21 Jun 2020 19:38:00: 4000000 INFO @ Sun, 21 Jun 2020 19:38:01: 8000000 INFO @ Sun, 21 Jun 2020 19:38:07: 5000000 INFO @ Sun, 21 Jun 2020 19:38:08: 12000000 INFO @ Sun, 21 Jun 2020 19:38:08: 9000000 INFO @ Sun, 21 Jun 2020 19:38:15: 6000000 INFO @ Sun, 21 Jun 2020 19:38:15: 10000000 INFO @ Sun, 21 Jun 2020 19:38:16: 13000000 INFO @ Sun, 21 Jun 2020 19:38:22: 7000000 INFO @ Sun, 21 Jun 2020 19:38:22: 11000000 INFO @ Sun, 21 Jun 2020 19:38:24: 14000000 INFO @ Sun, 21 Jun 2020 19:38:29: 8000000 INFO @ Sun, 21 Jun 2020 19:38:30: 12000000 INFO @ Sun, 21 Jun 2020 19:38:32: 15000000 INFO @ Sun, 21 Jun 2020 19:38:36: 9000000 INFO @ Sun, 21 Jun 2020 19:38:37: 13000000 INFO @ Sun, 21 Jun 2020 19:38:40: 16000000 INFO @ Sun, 21 Jun 2020 19:38:43: 10000000 INFO @ Sun, 21 Jun 2020 19:38:44: 14000000 INFO @ Sun, 21 Jun 2020 19:38:48: 17000000 INFO @ Sun, 21 Jun 2020 19:38:50: 11000000 INFO @ Sun, 21 Jun 2020 19:38:51: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:38:56: 18000000 INFO @ Sun, 21 Jun 2020 19:38:57: 12000000 INFO @ Sun, 21 Jun 2020 19:38:58: 16000000 INFO @ Sun, 21 Jun 2020 19:39:03: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:39:03: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:39:03: #1 total tags in treatment: 18983880 INFO @ Sun, 21 Jun 2020 19:39:03: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:39:03: #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 19:39:04: #1 tags after filtering in treatment: 18983498 INFO @ Sun, 21 Jun 2020 19:39:04: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:39:04: #1 finished! INFO @ Sun, 21 Jun 2020 19:39:04: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:39:04: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:39:04: 13000000 INFO @ Sun, 21 Jun 2020 19:39:05: #2 number of paired peaks: 6 WARNING @ Sun, 21 Jun 2020 19:39:05: Too few paired peaks (6) 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 19:39:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.05_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/SRX3011226/SRX3011226.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:39:05: 17000000 INFO @ Sun, 21 Jun 2020 19:39:11: 14000000 INFO @ Sun, 21 Jun 2020 19:39:12: 18000000 INFO @ Sun, 21 Jun 2020 19:39:18: 15000000 INFO @ Sun, 21 Jun 2020 19:39:19: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:39:19: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:39:19: #1 total tags in treatment: 18983880 INFO @ Sun, 21 Jun 2020 19:39:19: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:39:19: #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 19:39:19: #1 tags after filtering in treatment: 18983498 INFO @ Sun, 21 Jun 2020 19:39:19: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:39:19: #1 finished! INFO @ Sun, 21 Jun 2020 19:39:19: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:39:19: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:39:21: #2 number of paired peaks: 6 WARNING @ Sun, 21 Jun 2020 19:39:21: Too few paired peaks (6) 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 19:39:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.10_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/SRX3011226/SRX3011226.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:39:24: 16000000 INFO @ Sun, 21 Jun 2020 19:39:30: 17000000 INFO @ Sun, 21 Jun 2020 19:39:36: 18000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:39:41: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:39:41: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:39:41: #1 total tags in treatment: 18983880 INFO @ Sun, 21 Jun 2020 19:39:41: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:39:41: #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 19:39:42: #1 tags after filtering in treatment: 18983498 INFO @ Sun, 21 Jun 2020 19:39:42: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:39:42: #1 finished! INFO @ Sun, 21 Jun 2020 19:39:42: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:39:42: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:39:43: #2 number of paired peaks: 6 WARNING @ Sun, 21 Jun 2020 19:39:43: Too few paired peaks (6) 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 19:39:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.20_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/SRX3011226/SRX3011226.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX3011226/SRX3011226.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling