Job ID = 6527581 SRX = SRX1151229 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:53:12 prefetch.2.10.7: 1) Downloading 'SRR2188786'... 2020-06-29T12:53:12 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:54:42 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:54:42 prefetch.2.10.7: 'SRR2188786' is valid 2020-06-29T12:54:42 prefetch.2.10.7: 1) 'SRR2188786' was downloaded successfully 2020-06-29T12:55:34 prefetch.2.10.7: 'SRR2188786' has 10 unresolved dependencies 2020-06-29T12:55:34 prefetch.2.10.7: 2) Downloading 'ncbi-acc:NC_004353.3?vdb-ctx=refseq'... 2020-06-29T12:55:34 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:55:48 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:55:48 prefetch.2.10.7: 2) 'ncbi-acc:NC_004353.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:55:48 prefetch.2.10.7: 3) Downloading 'ncbi-acc:NC_004354.3?vdb-ctx=refseq'... 2020-06-29T12:55:48 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:56:02 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:56:02 prefetch.2.10.7: 3) 'ncbi-acc:NC_004354.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:56:02 prefetch.2.10.7: 4) Downloading 'ncbi-acc:NS_000188.1?vdb-ctx=refseq'... 2020-06-29T12:56:02 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:56:17 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:56:17 prefetch.2.10.7: 4) 'ncbi-acc:NS_000188.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:56:17 prefetch.2.10.7: 5) Downloading 'ncbi-acc:NT_033777.2?vdb-ctx=refseq'... 2020-06-29T12:56:17 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:56:31 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:56:31 prefetch.2.10.7: 5) 'ncbi-acc:NT_033777.2?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:56:31 prefetch.2.10.7: 6) Downloading 'ncbi-acc:NT_033778.3?vdb-ctx=refseq'... 2020-06-29T12:56:31 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:56:47 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:56:47 prefetch.2.10.7: 6) 'ncbi-acc:NT_033778.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:56:47 prefetch.2.10.7: 7) Downloading 'ncbi-acc:NT_033779.4?vdb-ctx=refseq'... 2020-06-29T12:56:47 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:57:01 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:57:01 prefetch.2.10.7: 7) 'ncbi-acc:NT_033779.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:57:01 prefetch.2.10.7: 8) Downloading 'ncbi-acc:NT_037436.3?vdb-ctx=refseq'... 2020-06-29T12:57:02 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:57:19 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:57:19 prefetch.2.10.7: 8) 'ncbi-acc:NT_037436.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:57:19 prefetch.2.10.7: 9) Downloading 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq'... 2020-06-29T12:57:19 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:57:29 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:57:29 prefetch.2.10.7: 9) 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:57:29 prefetch.2.10.7: 10) Downloading 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq'... 2020-06-29T12:57:29 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:57:38 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:57:38 prefetch.2.10.7: 10) 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:57:38 prefetch.2.10.7: 11) Downloading 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq'... 2020-06-29T12:57:38 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:57:47 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:57:47 prefetch.2.10.7: 11) 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq' was downloaded successfully Read 25079435 spots for SRR2188786/SRR2188786.sra Written 25079435 spots for SRR2188786/SRR2188786.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: 00:07:25 25079435 reads; of these: 25079435 (100.00%) were unpaired; of these: 554176 (2.21%) aligned 0 times 19491864 (77.72%) aligned exactly 1 time 5033395 (20.07%) aligned >1 times 97.79% overall alignment rate Time searching: 00:07:25 Overall time: 00:07:25 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] 6646800 / 24525259 = 0.2710 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 22:16:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.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 22:16:29: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:16:29: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:16:36: 1000000 INFO @ Mon, 29 Jun 2020 22:16:42: 2000000 INFO @ Mon, 29 Jun 2020 22:16:48: 3000000 INFO @ Mon, 29 Jun 2020 22:16:54: 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 22:16:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.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 22:16:59: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:16:59: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:17:00: 5000000 INFO @ Mon, 29 Jun 2020 22:17:06: 1000000 INFO @ Mon, 29 Jun 2020 22:17:07: 6000000 INFO @ Mon, 29 Jun 2020 22:17:12: 2000000 INFO @ Mon, 29 Jun 2020 22:17:13: 7000000 INFO @ Mon, 29 Jun 2020 22:17:19: 3000000 INFO @ Mon, 29 Jun 2020 22:17:19: 8000000 INFO @ Mon, 29 Jun 2020 22:17:25: 4000000 INFO @ Mon, 29 Jun 2020 22:17:26: 9000000 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 22:17:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.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 22:17:29: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:17:29: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:17:31: 5000000 INFO @ Mon, 29 Jun 2020 22:17:32: 10000000 INFO @ Mon, 29 Jun 2020 22:17:36: 1000000 INFO @ Mon, 29 Jun 2020 22:17:38: 6000000 INFO @ Mon, 29 Jun 2020 22:17:39: 11000000 INFO @ Mon, 29 Jun 2020 22:17:43: 2000000 INFO @ Mon, 29 Jun 2020 22:17:45: 7000000 INFO @ Mon, 29 Jun 2020 22:17:46: 12000000 INFO @ Mon, 29 Jun 2020 22:17:50: 3000000 INFO @ Mon, 29 Jun 2020 22:17:51: 8000000 INFO @ Mon, 29 Jun 2020 22:17:52: 13000000 INFO @ Mon, 29 Jun 2020 22:17:56: 4000000 INFO @ Mon, 29 Jun 2020 22:17:58: 9000000 INFO @ Mon, 29 Jun 2020 22:17:59: 14000000 INFO @ Mon, 29 Jun 2020 22:18:03: 5000000 INFO @ Mon, 29 Jun 2020 22:18:04: 10000000 INFO @ Mon, 29 Jun 2020 22:18:06: 15000000 INFO @ Mon, 29 Jun 2020 22:18:09: 6000000 INFO @ Mon, 29 Jun 2020 22:18:11: 11000000 INFO @ Mon, 29 Jun 2020 22:18:12: 16000000 INFO @ Mon, 29 Jun 2020 22:18:15: 7000000 INFO @ Mon, 29 Jun 2020 22:18:17: 12000000 INFO @ Mon, 29 Jun 2020 22:18:18: 17000000 INFO @ Mon, 29 Jun 2020 22:18:22: 8000000 INFO @ Mon, 29 Jun 2020 22:18:23: 13000000 INFO @ Mon, 29 Jun 2020 22:18:24: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:18:24: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:18:24: #1 total tags in treatment: 17878459 INFO @ Mon, 29 Jun 2020 22:18:24: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:18:24: #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 22:18:24: #1 tags after filtering in treatment: 17878459 INFO @ Mon, 29 Jun 2020 22:18:24: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:18:24: #1 finished! INFO @ Mon, 29 Jun 2020 22:18:24: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:18:24: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:18:25: #2 number of paired peaks: 74 WARNING @ Mon, 29 Jun 2020 22:18:25: Too few paired peaks (74) 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 22:18:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.05_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/SRX1151229/SRX1151229.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:18:28: 9000000 INFO @ Mon, 29 Jun 2020 22:18:29: 14000000 INFO @ Mon, 29 Jun 2020 22:18:34: 10000000 INFO @ Mon, 29 Jun 2020 22:18:36: 15000000 INFO @ Mon, 29 Jun 2020 22:18:40: 11000000 INFO @ Mon, 29 Jun 2020 22:18:42: 16000000 INFO @ Mon, 29 Jun 2020 22:18:46: 12000000 INFO @ Mon, 29 Jun 2020 22:18:48: 17000000 INFO @ Mon, 29 Jun 2020 22:18:52: 13000000 INFO @ Mon, 29 Jun 2020 22:18:53: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:18:53: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:18:53: #1 total tags in treatment: 17878459 INFO @ Mon, 29 Jun 2020 22:18:53: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:18:53: #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 22:18:54: #1 tags after filtering in treatment: 17878459 INFO @ Mon, 29 Jun 2020 22:18:54: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:18:54: #1 finished! INFO @ Mon, 29 Jun 2020 22:18:54: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:18:54: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:18:55: #2 number of paired peaks: 74 WARNING @ Mon, 29 Jun 2020 22:18:55: Too few paired peaks (74) 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 22:18:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.10_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/SRX1151229/SRX1151229.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:18:58: 14000000 INFO @ Mon, 29 Jun 2020 22:19:04: 15000000 INFO @ Mon, 29 Jun 2020 22:19:10: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:19:15: 17000000 INFO @ Mon, 29 Jun 2020 22:19:20: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:19:20: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:19:20: #1 total tags in treatment: 17878459 INFO @ Mon, 29 Jun 2020 22:19:20: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:19:20: #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 22:19:20: #1 tags after filtering in treatment: 17878459 INFO @ Mon, 29 Jun 2020 22:19:20: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:19:20: #1 finished! INFO @ Mon, 29 Jun 2020 22:19:20: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:19:20: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:19:21: #2 number of paired peaks: 74 WARNING @ Mon, 29 Jun 2020 22:19:21: Too few paired peaks (74) 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 22:19:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.20_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/SRX1151229/SRX1151229.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1151229/SRX1151229.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。