Job ID = 6527574 SRX = SRX1144509 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:58:12 prefetch.2.10.7: 1) Downloading 'SRR2157934'... 2020-06-29T12:58:12 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:59:49 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:59:50 prefetch.2.10.7: 'SRR2157934' is valid 2020-06-29T12:59:50 prefetch.2.10.7: 1) 'SRR2157934' was downloaded successfully 2020-06-29T13:00:41 prefetch.2.10.7: 'SRR2157934' has 10 unresolved dependencies 2020-06-29T13:00:41 prefetch.2.10.7: 2) Downloading 'ncbi-acc:NC_004353.3?vdb-ctx=refseq'... 2020-06-29T13:00:41 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:01:00 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:01:00 prefetch.2.10.7: 2) 'ncbi-acc:NC_004353.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:01:00 prefetch.2.10.7: 3) Downloading 'ncbi-acc:NC_004354.3?vdb-ctx=refseq'... 2020-06-29T13:01:00 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:01:18 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:01:18 prefetch.2.10.7: 3) 'ncbi-acc:NC_004354.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:01:18 prefetch.2.10.7: 4) Downloading 'ncbi-acc:NS_000188.1?vdb-ctx=refseq'... 2020-06-29T13:01:18 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:01:31 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:01:31 prefetch.2.10.7: 4) 'ncbi-acc:NS_000188.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:01:31 prefetch.2.10.7: 5) Downloading 'ncbi-acc:NT_033777.2?vdb-ctx=refseq'... 2020-06-29T13:01:31 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:01:45 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:01:45 prefetch.2.10.7: 5) 'ncbi-acc:NT_033777.2?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:01:45 prefetch.2.10.7: 6) Downloading 'ncbi-acc:NT_033778.3?vdb-ctx=refseq'... 2020-06-29T13:01:45 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:02:03 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:02:03 prefetch.2.10.7: 6) 'ncbi-acc:NT_033778.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:02:03 prefetch.2.10.7: 7) Downloading 'ncbi-acc:NT_033779.4?vdb-ctx=refseq'... 2020-06-29T13:02:03 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:02:21 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:02:21 prefetch.2.10.7: 7) 'ncbi-acc:NT_033779.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:02:21 prefetch.2.10.7: 8) Downloading 'ncbi-acc:NT_037436.3?vdb-ctx=refseq'... 2020-06-29T13:02:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:02:34 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:02:34 prefetch.2.10.7: 8) 'ncbi-acc:NT_037436.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:02:34 prefetch.2.10.7: 9) Downloading 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq'... 2020-06-29T13:02:34 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:02:44 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:02:44 prefetch.2.10.7: 9) 'ncbi-acc:NW_001848856.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:02:44 prefetch.2.10.7: 10) Downloading 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq'... 2020-06-29T13:02:44 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:02:54 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:02:54 prefetch.2.10.7: 10) 'ncbi-acc:NW_001848857.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:02:54 prefetch.2.10.7: 11) Downloading 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq'... 2020-06-29T13:02:54 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:03:08 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:03:08 prefetch.2.10.7: 11) 'ncbi-acc:NW_001848858.1?vdb-ctx=refseq' was downloaded successfully Read 18648360 spots for SRR2157934/SRR2157934.sra Written 18648360 spots for SRR2157934/SRR2157934.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: 00:05:26 18648360 reads; of these: 18648360 (100.00%) were unpaired; of these: 412451 (2.21%) aligned 0 times 13889036 (74.48%) aligned exactly 1 time 4346873 (23.31%) aligned >1 times 97.79% overall alignment rate Time searching: 00:05:26 Overall time: 00:05:26 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 8 files... [bam_rmdupse_core] 2826984 / 18235909 = 0.1550 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 22:17:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.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 22:17:59: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:17:59: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:18:04: 1000000 INFO @ Mon, 29 Jun 2020 22:18:10: 2000000 INFO @ Mon, 29 Jun 2020 22:18:15: 3000000 INFO @ Mon, 29 Jun 2020 22:18:20: 4000000 INFO @ Mon, 29 Jun 2020 22:18:25: 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 22:18:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.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 22:18:29: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:18:29: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:18:30: 6000000 INFO @ Mon, 29 Jun 2020 22:18:35: 1000000 INFO @ Mon, 29 Jun 2020 22:18:36: 7000000 INFO @ Mon, 29 Jun 2020 22:18:40: 2000000 INFO @ Mon, 29 Jun 2020 22:18:42: 8000000 INFO @ Mon, 29 Jun 2020 22:18:46: 3000000 INFO @ Mon, 29 Jun 2020 22:18:47: 9000000 INFO @ Mon, 29 Jun 2020 22:18:52: 4000000 INFO @ Mon, 29 Jun 2020 22:18:53: 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 22:18:57: 5000000 INFO @ Mon, 29 Jun 2020 22:18:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.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 22:18:59: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:18:59: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:18:59: 11000000 INFO @ Mon, 29 Jun 2020 22:19:03: 6000000 INFO @ Mon, 29 Jun 2020 22:19:04: 1000000 INFO @ Mon, 29 Jun 2020 22:19:04: 12000000 INFO @ Mon, 29 Jun 2020 22:19:09: 7000000 INFO @ Mon, 29 Jun 2020 22:19:10: 2000000 INFO @ Mon, 29 Jun 2020 22:19:10: 13000000 INFO @ Mon, 29 Jun 2020 22:19:14: 8000000 INFO @ Mon, 29 Jun 2020 22:19:16: 14000000 INFO @ Mon, 29 Jun 2020 22:19:16: 3000000 INFO @ Mon, 29 Jun 2020 22:19:20: 9000000 INFO @ Mon, 29 Jun 2020 22:19:21: 15000000 INFO @ Mon, 29 Jun 2020 22:19:21: 4000000 INFO @ Mon, 29 Jun 2020 22:19:24: #1 tag size is determined as 47 bps INFO @ Mon, 29 Jun 2020 22:19:24: #1 tag size = 47 INFO @ Mon, 29 Jun 2020 22:19:24: #1 total tags in treatment: 15408925 INFO @ Mon, 29 Jun 2020 22:19:24: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:19:24: #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 22:19:24: #1 tags after filtering in treatment: 15408925 INFO @ Mon, 29 Jun 2020 22:19:24: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:19:24: #1 finished! INFO @ Mon, 29 Jun 2020 22:19:24: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:19:24: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:19:25: #2 number of paired peaks: 59 WARNING @ Mon, 29 Jun 2020 22:19:25: Too few paired peaks (59) 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 22:19:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.05_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/SRX1144509/SRX1144509.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:19:25: 10000000 INFO @ Mon, 29 Jun 2020 22:19:27: 5000000 INFO @ Mon, 29 Jun 2020 22:19:31: 11000000 INFO @ Mon, 29 Jun 2020 22:19:33: 6000000 INFO @ Mon, 29 Jun 2020 22:19:37: 12000000 INFO @ Mon, 29 Jun 2020 22:19:38: 7000000 INFO @ Mon, 29 Jun 2020 22:19:42: 13000000 INFO @ Mon, 29 Jun 2020 22:19:44: 8000000 INFO @ Mon, 29 Jun 2020 22:19:48: 14000000 INFO @ Mon, 29 Jun 2020 22:19:49: 9000000 INFO @ Mon, 29 Jun 2020 22:19:53: 15000000 INFO @ Mon, 29 Jun 2020 22:19:55: 10000000 INFO @ Mon, 29 Jun 2020 22:19:55: #1 tag size is determined as 47 bps INFO @ Mon, 29 Jun 2020 22:19:55: #1 tag size = 47 INFO @ Mon, 29 Jun 2020 22:19:55: #1 total tags in treatment: 15408925 INFO @ Mon, 29 Jun 2020 22:19:55: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:19:55: #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 22:19:56: #1 tags after filtering in treatment: 15408925 INFO @ Mon, 29 Jun 2020 22:19:56: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:19:56: #1 finished! INFO @ Mon, 29 Jun 2020 22:19:56: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:19:56: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:19:57: #2 number of paired peaks: 59 WARNING @ Mon, 29 Jun 2020 22:19:57: Too few paired peaks (59) 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 22:19:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.10_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/SRX1144509/SRX1144509.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:20:00: 11000000 INFO @ Mon, 29 Jun 2020 22:20:05: 12000000 INFO @ Mon, 29 Jun 2020 22:20:11: 13000000 INFO @ Mon, 29 Jun 2020 22:20:16: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:20:21: 15000000 INFO @ Mon, 29 Jun 2020 22:20:23: #1 tag size is determined as 47 bps INFO @ Mon, 29 Jun 2020 22:20:23: #1 tag size = 47 INFO @ Mon, 29 Jun 2020 22:20:23: #1 total tags in treatment: 15408925 INFO @ Mon, 29 Jun 2020 22:20:23: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:20:23: #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 22:20:24: #1 tags after filtering in treatment: 15408925 INFO @ Mon, 29 Jun 2020 22:20:24: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:20:24: #1 finished! INFO @ Mon, 29 Jun 2020 22:20:24: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:20:24: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:20:25: #2 number of paired peaks: 59 WARNING @ Mon, 29 Jun 2020 22:20:25: Too few paired peaks (59) 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 22:20:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.20_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/SRX1144509/SRX1144509.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1144509/SRX1144509.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。