Job ID = 6527583 SRX = SRX1166570 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:09:39 prefetch.2.10.7: 1) Downloading 'SRR2189055'... 2020-06-29T13:09:39 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:11:07 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:11:08 prefetch.2.10.7: 'SRR2189055' is valid 2020-06-29T13:11:08 prefetch.2.10.7: 1) 'SRR2189055' was downloaded successfully 2020-06-29T13:12:00 prefetch.2.10.7: 'SRR2189055' has 10 unresolved dependencies 2020-06-29T13:12:00 prefetch.2.10.7: 2) Downloading 'ncbi-acc:NC_004353.3?vdb-ctx=refseq'... 2020-06-29T13:12:00 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:12:08 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:12:08 prefetch.2.10.7: 2) 'ncbi-acc:NC_004353.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:12:08 prefetch.2.10.7: 3) Downloading 'ncbi-acc:NC_004354.3?vdb-ctx=refseq'... 2020-06-29T13:12:08 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:12:21 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:12:21 prefetch.2.10.7: 3) 'ncbi-acc:NC_004354.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:12:21 prefetch.2.10.7: 4) Downloading 'ncbi-acc:NS_000188.1?vdb-ctx=refseq'... 2020-06-29T13:12:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:12:37 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:12:37 prefetch.2.10.7: 4) 'ncbi-acc:NS_000188.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:12:37 prefetch.2.10.7: 5) Downloading 'ncbi-acc:NT_033777.2?vdb-ctx=refseq'... 2020-06-29T13:12:37 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:12:50 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:12:50 prefetch.2.10.7: 5) 'ncbi-acc:NT_033777.2?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:12:50 prefetch.2.10.7: 6) Downloading 'ncbi-acc:NT_033778.3?vdb-ctx=refseq'... 2020-06-29T13:12:50 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:13:07 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:13:07 prefetch.2.10.7: 6) 'ncbi-acc:NT_033778.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:13:07 prefetch.2.10.7: 7) Downloading 'ncbi-acc:NT_033779.4?vdb-ctx=refseq'... 2020-06-29T13:13:07 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:13:24 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:13:24 prefetch.2.10.7: 7) 'ncbi-acc:NT_033779.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:13:24 prefetch.2.10.7: 8) Downloading 'ncbi-acc:NT_037436.3?vdb-ctx=refseq'... 2020-06-29T13:13:24 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:13:37 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:13:37 prefetch.2.10.7: 8) 'ncbi-acc:NT_037436.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:13:37 prefetch.2.10.7: 9) Downloading 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq'... 2020-06-29T13:13:37 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:13:48 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:13:48 prefetch.2.10.7: 9) 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:13:48 prefetch.2.10.7: 10) Downloading 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq'... 2020-06-29T13:13:48 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:13:57 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:13:57 prefetch.2.10.7: 10) 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:13:57 prefetch.2.10.7: 11) Downloading 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq'... 2020-06-29T13:13:57 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:14:10 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:14:10 prefetch.2.10.7: 11) 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq' was downloaded successfully Read 26749908 spots for SRR2189055/SRR2189055.sra Written 26749908 spots for SRR2189055/SRR2189055.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: 00:07:14 26749908 reads; of these: 26749908 (100.00%) were unpaired; of these: 520551 (1.95%) aligned 0 times 20874343 (78.04%) aligned exactly 1 time 5355014 (20.02%) aligned >1 times 98.05% overall alignment rate Time searching: 00:07:14 Overall time: 00:07:14 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] 6575212 / 26229357 = 0.2507 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 22:33:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.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 22:33:58: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:33:58: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:34:03: 1000000 INFO @ Mon, 29 Jun 2020 22:34:09: 2000000 INFO @ Mon, 29 Jun 2020 22:34:14: 3000000 INFO @ Mon, 29 Jun 2020 22:34:19: 4000000 INFO @ Mon, 29 Jun 2020 22:34:25: 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 22:34:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.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 22:34:28: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:34:28: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:34:30: 6000000 INFO @ Mon, 29 Jun 2020 22:34:34: 1000000 INFO @ Mon, 29 Jun 2020 22:34:36: 7000000 INFO @ Mon, 29 Jun 2020 22:34:40: 2000000 INFO @ Mon, 29 Jun 2020 22:34:42: 8000000 INFO @ Mon, 29 Jun 2020 22:34:46: 3000000 INFO @ Mon, 29 Jun 2020 22:34:48: 9000000 INFO @ Mon, 29 Jun 2020 22:34:52: 4000000 INFO @ Mon, 29 Jun 2020 22:34:54: 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 22:34:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.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 22:34:58: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:34:58: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:34:58: 5000000 INFO @ Mon, 29 Jun 2020 22:35:00: 11000000 INFO @ Mon, 29 Jun 2020 22:35:05: 6000000 INFO @ Mon, 29 Jun 2020 22:35:05: 1000000 INFO @ Mon, 29 Jun 2020 22:35:06: 12000000 INFO @ Mon, 29 Jun 2020 22:35:11: 7000000 INFO @ Mon, 29 Jun 2020 22:35:11: 2000000 INFO @ Mon, 29 Jun 2020 22:35:13: 13000000 INFO @ Mon, 29 Jun 2020 22:35:18: 8000000 INFO @ Mon, 29 Jun 2020 22:35:18: 3000000 INFO @ Mon, 29 Jun 2020 22:35:19: 14000000 INFO @ Mon, 29 Jun 2020 22:35:25: 9000000 INFO @ Mon, 29 Jun 2020 22:35:25: 4000000 INFO @ Mon, 29 Jun 2020 22:35:25: 15000000 INFO @ Mon, 29 Jun 2020 22:35:31: 5000000 INFO @ Mon, 29 Jun 2020 22:35:31: 10000000 INFO @ Mon, 29 Jun 2020 22:35:32: 16000000 INFO @ Mon, 29 Jun 2020 22:35:38: 6000000 INFO @ Mon, 29 Jun 2020 22:35:38: 11000000 INFO @ Mon, 29 Jun 2020 22:35:38: 17000000 INFO @ Mon, 29 Jun 2020 22:35:44: 7000000 INFO @ Mon, 29 Jun 2020 22:35:45: 18000000 INFO @ Mon, 29 Jun 2020 22:35:45: 12000000 INFO @ Mon, 29 Jun 2020 22:35:51: 19000000 INFO @ Mon, 29 Jun 2020 22:35:51: 8000000 INFO @ Mon, 29 Jun 2020 22:35:52: 13000000 INFO @ Mon, 29 Jun 2020 22:35:55: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:35:55: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:35:55: #1 total tags in treatment: 19654145 INFO @ Mon, 29 Jun 2020 22:35:55: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:35:55: #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 22:35:56: #1 tags after filtering in treatment: 19654145 INFO @ Mon, 29 Jun 2020 22:35:56: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:35:56: #1 finished! INFO @ Mon, 29 Jun 2020 22:35:56: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:35:56: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:35:57: #2 number of paired peaks: 32 WARNING @ Mon, 29 Jun 2020 22:35:57: Too few paired peaks (32) 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 22:35:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.05_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/SRX1166570/SRX1166570.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:35:58: 9000000 INFO @ Mon, 29 Jun 2020 22:35:58: 14000000 INFO @ Mon, 29 Jun 2020 22:36:04: 10000000 INFO @ Mon, 29 Jun 2020 22:36:04: 15000000 INFO @ Mon, 29 Jun 2020 22:36:09: 11000000 INFO @ Mon, 29 Jun 2020 22:36:10: 16000000 INFO @ Mon, 29 Jun 2020 22:36:15: 12000000 INFO @ Mon, 29 Jun 2020 22:36:16: 17000000 INFO @ Mon, 29 Jun 2020 22:36:21: 13000000 INFO @ Mon, 29 Jun 2020 22:36:22: 18000000 INFO @ Mon, 29 Jun 2020 22:36:27: 14000000 INFO @ Mon, 29 Jun 2020 22:36:27: 19000000 INFO @ Mon, 29 Jun 2020 22:36:31: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:36:31: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:36:31: #1 total tags in treatment: 19654145 INFO @ Mon, 29 Jun 2020 22:36:31: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:36:31: #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 22:36:32: #1 tags after filtering in treatment: 19654145 INFO @ Mon, 29 Jun 2020 22:36:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:36:32: #1 finished! INFO @ Mon, 29 Jun 2020 22:36:32: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:36:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:36:33: 15000000 INFO @ Mon, 29 Jun 2020 22:36:33: #2 number of paired peaks: 32 WARNING @ Mon, 29 Jun 2020 22:36:33: Too few paired peaks (32) 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 22:36:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.10_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/SRX1166570/SRX1166570.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:36:38: 16000000 INFO @ Mon, 29 Jun 2020 22:36:43: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:36:48: 18000000 INFO @ Mon, 29 Jun 2020 22:36:53: 19000000 INFO @ Mon, 29 Jun 2020 22:36:57: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:36:57: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:36:57: #1 total tags in treatment: 19654145 INFO @ Mon, 29 Jun 2020 22:36:57: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:36:57: #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 22:36:57: #1 tags after filtering in treatment: 19654145 INFO @ Mon, 29 Jun 2020 22:36:57: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:36:57: #1 finished! INFO @ Mon, 29 Jun 2020 22:36:57: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:36:57: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:36:59: #2 number of paired peaks: 32 WARNING @ Mon, 29 Jun 2020 22:36:59: Too few paired peaks (32) 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 22:36:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.20_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/SRX1166570/SRX1166570.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1166570/SRX1166570.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。