Job ID = 6527590 SRX = SRX1167621 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:53:39 prefetch.2.10.7: 1) Downloading 'SRR2192782'... 2020-06-29T12:53:39 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:54:32 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:54:32 prefetch.2.10.7: 'SRR2192782' is valid 2020-06-29T12:54:32 prefetch.2.10.7: 1) 'SRR2192782' was downloaded successfully 2020-06-29T12:55:24 prefetch.2.10.7: 'SRR2192782' has 10 unresolved dependencies 2020-06-29T12:55:24 prefetch.2.10.7: 2) Downloading 'ncbi-acc:NC_004353.3?vdb-ctx=refseq'... 2020-06-29T12:55:24 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:55:33 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:55:33 prefetch.2.10.7: 2) 'ncbi-acc:NC_004353.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:55:33 prefetch.2.10.7: 3) Downloading 'ncbi-acc:NC_004354.3?vdb-ctx=refseq'... 2020-06-29T12:55:33 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:55:49 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:55:49 prefetch.2.10.7: 3) 'ncbi-acc:NC_004354.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:55:49 prefetch.2.10.7: 4) Downloading 'ncbi-acc:NS_000188.1?vdb-ctx=refseq'... 2020-06-29T12:55:49 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:56:01 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:56:01 prefetch.2.10.7: 4) 'ncbi-acc:NS_000188.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:56:01 prefetch.2.10.7: 5) Downloading 'ncbi-acc:NT_033777.2?vdb-ctx=refseq'... 2020-06-29T12:56:01 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:56:19 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:56:19 prefetch.2.10.7: 5) 'ncbi-acc:NT_033777.2?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:56:19 prefetch.2.10.7: 6) Downloading 'ncbi-acc:NT_033778.3?vdb-ctx=refseq'... 2020-06-29T12:56:19 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:56:33 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:56:33 prefetch.2.10.7: 6) 'ncbi-acc:NT_033778.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:56:33 prefetch.2.10.7: 7) Downloading 'ncbi-acc:NT_033779.4?vdb-ctx=refseq'... 2020-06-29T12:56:33 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:56:51 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:56:51 prefetch.2.10.7: 7) 'ncbi-acc:NT_033779.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:56:51 prefetch.2.10.7: 8) Downloading 'ncbi-acc:NT_037436.3?vdb-ctx=refseq'... 2020-06-29T12:56:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:57:03 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:57:03 prefetch.2.10.7: 8) 'ncbi-acc:NT_037436.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:57:03 prefetch.2.10.7: 9) Downloading 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq'... 2020-06-29T12:57:03 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:57:16 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:57:16 prefetch.2.10.7: 9) 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:57:16 prefetch.2.10.7: 10) Downloading 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq'... 2020-06-29T12:57:16 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:57:26 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:57:26 prefetch.2.10.7: 10) 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:57:26 prefetch.2.10.7: 11) Downloading 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq'... 2020-06-29T12:57:26 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:57:39 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:57:39 prefetch.2.10.7: 11) 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq' was downloaded successfully Read 23931965 spots for SRR2192782/SRR2192782.sra Written 23931965 spots for SRR2192782/SRR2192782.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: 00:00:01 Multiseed full-index search: 00:06:14 23931965 reads; of these: 23931965 (100.00%) were unpaired; of these: 482848 (2.02%) aligned 0 times 18672460 (78.02%) aligned exactly 1 time 4776657 (19.96%) aligned >1 times 97.98% overall alignment rate Time searching: 00:06:15 Overall time: 00:06:15 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] 7578458 / 23449117 = 0.3232 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 22:14:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.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 22:14:55: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:14:55: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:15:01: 1000000 INFO @ Mon, 29 Jun 2020 22:15:06: 2000000 INFO @ Mon, 29 Jun 2020 22:15:12: 3000000 INFO @ Mon, 29 Jun 2020 22:15:17: 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 22:15:23: 5000000 INFO @ Mon, 29 Jun 2020 22:15:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.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 22:15:25: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:15:25: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:15:29: 6000000 INFO @ Mon, 29 Jun 2020 22:15:31: 1000000 INFO @ Mon, 29 Jun 2020 22:15:34: 7000000 INFO @ Mon, 29 Jun 2020 22:15:37: 2000000 INFO @ Mon, 29 Jun 2020 22:15:40: 8000000 INFO @ Mon, 29 Jun 2020 22:15:43: 3000000 INFO @ Mon, 29 Jun 2020 22:15:46: 9000000 INFO @ Mon, 29 Jun 2020 22:15:49: 4000000 INFO @ Mon, 29 Jun 2020 22:15:52: 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 22:15:55: 5000000 INFO @ Mon, 29 Jun 2020 22:15:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.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 22:15:55: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:15:55: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:15:58: 11000000 INFO @ Mon, 29 Jun 2020 22:16:00: 6000000 INFO @ Mon, 29 Jun 2020 22:16:01: 1000000 INFO @ Mon, 29 Jun 2020 22:16:03: 12000000 INFO @ Mon, 29 Jun 2020 22:16:06: 7000000 INFO @ Mon, 29 Jun 2020 22:16:07: 2000000 INFO @ Mon, 29 Jun 2020 22:16:09: 13000000 INFO @ Mon, 29 Jun 2020 22:16:12: 8000000 INFO @ Mon, 29 Jun 2020 22:16:13: 3000000 INFO @ Mon, 29 Jun 2020 22:16:15: 14000000 INFO @ Mon, 29 Jun 2020 22:16:18: 9000000 INFO @ Mon, 29 Jun 2020 22:16:18: 4000000 INFO @ Mon, 29 Jun 2020 22:16:21: 15000000 INFO @ Mon, 29 Jun 2020 22:16:24: 10000000 INFO @ Mon, 29 Jun 2020 22:16:24: 5000000 INFO @ Mon, 29 Jun 2020 22:16:26: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:16:26: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:16:26: #1 total tags in treatment: 15870659 INFO @ Mon, 29 Jun 2020 22:16:26: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:16:26: #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 22:16:27: #1 tags after filtering in treatment: 15870659 INFO @ Mon, 29 Jun 2020 22:16:27: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:16:27: #1 finished! INFO @ Mon, 29 Jun 2020 22:16:27: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:16:27: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:16:28: #2 number of paired peaks: 46 WARNING @ Mon, 29 Jun 2020 22:16:28: Too few paired peaks (46) 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 22:16:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.05_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/SRX1167621/SRX1167621.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:16:29: 11000000 INFO @ Mon, 29 Jun 2020 22:16:30: 6000000 INFO @ Mon, 29 Jun 2020 22:16:35: 12000000 INFO @ Mon, 29 Jun 2020 22:16:35: 7000000 INFO @ Mon, 29 Jun 2020 22:16:40: 13000000 INFO @ Mon, 29 Jun 2020 22:16:40: 8000000 INFO @ Mon, 29 Jun 2020 22:16:45: 9000000 INFO @ Mon, 29 Jun 2020 22:16:45: 14000000 INFO @ Mon, 29 Jun 2020 22:16:51: 10000000 INFO @ Mon, 29 Jun 2020 22:16:51: 15000000 INFO @ Mon, 29 Jun 2020 22:16:55: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:16:55: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:16:55: #1 total tags in treatment: 15870659 INFO @ Mon, 29 Jun 2020 22:16:55: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:16:55: #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 22:16:56: 11000000 INFO @ Mon, 29 Jun 2020 22:16:56: #1 tags after filtering in treatment: 15870659 INFO @ Mon, 29 Jun 2020 22:16:56: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:16:56: #1 finished! INFO @ Mon, 29 Jun 2020 22:16:56: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:16:56: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:16:57: #2 number of paired peaks: 46 WARNING @ Mon, 29 Jun 2020 22:16:57: Too few paired peaks (46) 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 22:16:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.10_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/SRX1167621/SRX1167621.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:17:01: 12000000 INFO @ Mon, 29 Jun 2020 22:17:06: 13000000 INFO @ Mon, 29 Jun 2020 22:17:10: 14000000 INFO @ Mon, 29 Jun 2020 22:17:15: 15000000 INFO @ Mon, 29 Jun 2020 22:17:20: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:17:20: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:17:20: #1 total tags in treatment: 15870659 INFO @ Mon, 29 Jun 2020 22:17:20: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:17:20: #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 22:17:20: #1 tags after filtering in treatment: 15870659 INFO @ Mon, 29 Jun 2020 22:17:20: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:17:20: #1 finished! INFO @ Mon, 29 Jun 2020 22:17:20: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:17:20: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:17:21: #2 number of paired peaks: 46 WARNING @ Mon, 29 Jun 2020 22:17:21: Too few paired peaks (46) 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 22:17:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.20_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/SRX1167621/SRX1167621.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1167621/SRX1167621.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。