Job ID = 6527587 SRX = SRX1167502 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:26:53 prefetch.2.10.7: 1) Downloading 'SRR2192590'... 2020-06-29T12:26:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:28:48 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:28:48 prefetch.2.10.7: 'SRR2192590' is valid 2020-06-29T12:28:48 prefetch.2.10.7: 1) 'SRR2192590' was downloaded successfully 2020-06-29T12:29:40 prefetch.2.10.7: 'SRR2192590' has 10 unresolved dependencies 2020-06-29T12:29:40 prefetch.2.10.7: 2) Downloading 'ncbi-acc:NC_004353.3?vdb-ctx=refseq'... 2020-06-29T12:29:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:29:52 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:29:52 prefetch.2.10.7: 2) 'ncbi-acc:NC_004353.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:29:52 prefetch.2.10.7: 3) Downloading 'ncbi-acc:NC_004354.3?vdb-ctx=refseq'... 2020-06-29T12:29:52 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:30:06 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:30:06 prefetch.2.10.7: 3) 'ncbi-acc:NC_004354.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:30:06 prefetch.2.10.7: 4) Downloading 'ncbi-acc:NS_000188.1?vdb-ctx=refseq'... 2020-06-29T12:30:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:30:22 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:30:22 prefetch.2.10.7: 4) 'ncbi-acc:NS_000188.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:30:22 prefetch.2.10.7: 5) Downloading 'ncbi-acc:NT_033777.2?vdb-ctx=refseq'... 2020-06-29T12:30:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:30:36 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:30:36 prefetch.2.10.7: 5) 'ncbi-acc:NT_033777.2?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:30:36 prefetch.2.10.7: 6) Downloading 'ncbi-acc:NT_033778.3?vdb-ctx=refseq'... 2020-06-29T12:30:36 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:30:49 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:30:49 prefetch.2.10.7: 6) 'ncbi-acc:NT_033778.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:30:49 prefetch.2.10.7: 7) Downloading 'ncbi-acc:NT_033779.4?vdb-ctx=refseq'... 2020-06-29T12:30:49 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:31:07 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:31:07 prefetch.2.10.7: 7) 'ncbi-acc:NT_033779.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:31:07 prefetch.2.10.7: 8) Downloading 'ncbi-acc:NT_037436.3?vdb-ctx=refseq'... 2020-06-29T12:31:07 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:31:21 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:31:21 prefetch.2.10.7: 8) 'ncbi-acc:NT_037436.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:31:21 prefetch.2.10.7: 9) Downloading 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq'... 2020-06-29T12:31:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:31:35 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:31:35 prefetch.2.10.7: 9) 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:31:35 prefetch.2.10.7: 10) Downloading 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq'... 2020-06-29T12:31:35 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:31:49 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:31:49 prefetch.2.10.7: 10) 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:31:49 prefetch.2.10.7: 11) Downloading 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq'... 2020-06-29T12:31:49 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:32:00 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:32:00 prefetch.2.10.7: 11) 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq' was downloaded successfully Read 26542053 spots for SRR2192590/SRR2192590.sra Written 26542053 spots for SRR2192590/SRR2192590.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: 00:06:54 26542053 reads; of these: 26542053 (100.00%) were unpaired; of these: 560087 (2.11%) aligned 0 times 20712851 (78.04%) aligned exactly 1 time 5269115 (19.85%) aligned >1 times 97.89% overall alignment rate Time searching: 00:06:54 Overall time: 00:06:54 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 10826364 / 25981966 = 0.4167 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 21:48:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.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 21:48:20: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:48:20: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:48:25: 1000000 INFO @ Mon, 29 Jun 2020 21:48:31: 2000000 INFO @ Mon, 29 Jun 2020 21:48:36: 3000000 INFO @ Mon, 29 Jun 2020 21:48:42: 4000000 INFO @ Mon, 29 Jun 2020 21:48:47: 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 @ Mon, 29 Jun 2020 21:48:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.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 21:48:50: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:48:50: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:48:53: 6000000 INFO @ Mon, 29 Jun 2020 21:48:56: 1000000 INFO @ Mon, 29 Jun 2020 21:48:59: 7000000 INFO @ Mon, 29 Jun 2020 21:49:02: 2000000 INFO @ Mon, 29 Jun 2020 21:49:04: 8000000 INFO @ Mon, 29 Jun 2020 21:49:08: 3000000 INFO @ Mon, 29 Jun 2020 21:49:10: 9000000 INFO @ Mon, 29 Jun 2020 21:49:14: 4000000 INFO @ Mon, 29 Jun 2020 21:49:16: 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 @ Mon, 29 Jun 2020 21:49:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.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 21:49:20: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:49:20: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:49:20: 5000000 INFO @ Mon, 29 Jun 2020 21:49:21: 11000000 INFO @ Mon, 29 Jun 2020 21:49:26: 1000000 INFO @ Mon, 29 Jun 2020 21:49:26: 6000000 INFO @ Mon, 29 Jun 2020 21:49:27: 12000000 INFO @ Mon, 29 Jun 2020 21:49:32: 2000000 INFO @ Mon, 29 Jun 2020 21:49:32: 7000000 INFO @ Mon, 29 Jun 2020 21:49:33: 13000000 INFO @ Mon, 29 Jun 2020 21:49:38: 3000000 INFO @ Mon, 29 Jun 2020 21:49:38: 8000000 INFO @ Mon, 29 Jun 2020 21:49:39: 14000000 INFO @ Mon, 29 Jun 2020 21:49:44: 9000000 INFO @ Mon, 29 Jun 2020 21:49:45: 4000000 INFO @ Mon, 29 Jun 2020 21:49:45: 15000000 INFO @ Mon, 29 Jun 2020 21:49:46: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 21:49:46: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 21:49:46: #1 total tags in treatment: 15155602 INFO @ Mon, 29 Jun 2020 21:49:46: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:49:46: #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 21:49:46: #1 tags after filtering in treatment: 15155602 INFO @ Mon, 29 Jun 2020 21:49:46: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:49:46: #1 finished! INFO @ Mon, 29 Jun 2020 21:49:46: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:49:46: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:49:47: #2 number of paired peaks: 75 WARNING @ Mon, 29 Jun 2020 21:49:47: Too few paired peaks (75) 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 21:49:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.05_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/SRX1167502/SRX1167502.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:49:50: 10000000 INFO @ Mon, 29 Jun 2020 21:49:51: 5000000 INFO @ Mon, 29 Jun 2020 21:49:56: 11000000 INFO @ Mon, 29 Jun 2020 21:49:57: 6000000 INFO @ Mon, 29 Jun 2020 21:50:02: 12000000 INFO @ Mon, 29 Jun 2020 21:50:03: 7000000 INFO @ Mon, 29 Jun 2020 21:50:08: 13000000 INFO @ Mon, 29 Jun 2020 21:50:09: 8000000 INFO @ Mon, 29 Jun 2020 21:50:14: 14000000 INFO @ Mon, 29 Jun 2020 21:50:15: 9000000 INFO @ Mon, 29 Jun 2020 21:50:20: 15000000 INFO @ Mon, 29 Jun 2020 21:50:21: 10000000 INFO @ Mon, 29 Jun 2020 21:50:21: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 21:50:21: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 21:50:21: #1 total tags in treatment: 15155602 INFO @ Mon, 29 Jun 2020 21:50:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:50:21: #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 21:50:21: #1 tags after filtering in treatment: 15155602 INFO @ Mon, 29 Jun 2020 21:50:21: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:50:21: #1 finished! INFO @ Mon, 29 Jun 2020 21:50:21: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:50:21: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:50:22: #2 number of paired peaks: 75 WARNING @ Mon, 29 Jun 2020 21:50:22: Too few paired peaks (75) 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 21:50:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.10_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/dm3/SRX1167502/SRX1167502.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:50:26: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 21:50:32: 12000000 INFO @ Mon, 29 Jun 2020 21:50:38: 13000000 INFO @ Mon, 29 Jun 2020 21:50:43: 14000000 INFO @ Mon, 29 Jun 2020 21:50:49: 15000000 INFO @ Mon, 29 Jun 2020 21:50:50: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 21:50:50: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 21:50:50: #1 total tags in treatment: 15155602 INFO @ Mon, 29 Jun 2020 21:50:50: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:50:50: #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 21:50:50: #1 tags after filtering in treatment: 15155602 INFO @ Mon, 29 Jun 2020 21:50:50: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:50:50: #1 finished! INFO @ Mon, 29 Jun 2020 21:50:50: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:50:50: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:50:51: #2 number of paired peaks: 75 WARNING @ Mon, 29 Jun 2020 21:50:51: Too few paired peaks (75) 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 21:50:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.20_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/SRX1167502/SRX1167502.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1167502/SRX1167502.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。