Job ID = 6527559 SRX = SRX1115692 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:44:39 prefetch.2.10.7: 1) Downloading 'SRR2124121'... 2020-06-29T12:44:39 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:46:36 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:46:36 prefetch.2.10.7: 1) 'SRR2124121' was downloaded successfully 2020-06-29T12:47:27 prefetch.2.10.7: 'SRR2124121' has 10 unresolved dependencies 2020-06-29T12:47:27 prefetch.2.10.7: 2) Downloading 'ncbi-acc:AE013599.4?vdb-ctx=refseq'... 2020-06-29T12:47:27 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:47:43 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:47:43 prefetch.2.10.7: 2) 'ncbi-acc:AE013599.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:47:43 prefetch.2.10.7: 3) Downloading 'ncbi-acc:AE014134.5?vdb-ctx=refseq'... 2020-06-29T12:47:43 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:48:00 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:48:00 prefetch.2.10.7: 3) 'ncbi-acc:AE014134.5?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:48:00 prefetch.2.10.7: 4) Downloading 'ncbi-acc:AE014135.3?vdb-ctx=refseq'... 2020-06-29T12:48:00 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:48:08 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:48:08 prefetch.2.10.7: 4) 'ncbi-acc:AE014135.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:48:08 prefetch.2.10.7: 5) Downloading 'ncbi-acc:AE014296.4?vdb-ctx=refseq'... 2020-06-29T12:48:08 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:48:21 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:48:21 prefetch.2.10.7: 5) 'ncbi-acc:AE014296.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:48:21 prefetch.2.10.7: 6) Downloading 'ncbi-acc:AE014297.2?vdb-ctx=refseq'... 2020-06-29T12:48:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:48:35 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:48:35 prefetch.2.10.7: 6) 'ncbi-acc:AE014297.2?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:48:35 prefetch.2.10.7: 7) Downloading 'ncbi-acc:AE014298.4?vdb-ctx=refseq'... 2020-06-29T12:48:35 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:48:52 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:48:52 prefetch.2.10.7: 7) 'ncbi-acc:AE014298.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:48:52 prefetch.2.10.7: 8) Downloading 'ncbi-acc:CM000457.1?vdb-ctx=refseq'... 2020-06-29T12:48:52 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:49:05 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:49:05 prefetch.2.10.7: 8) 'ncbi-acc:CM000457.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:49:05 prefetch.2.10.7: 9) Downloading 'ncbi-acc:CM000458.1?vdb-ctx=refseq'... 2020-06-29T12:49:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:49:18 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:49:18 prefetch.2.10.7: 9) 'ncbi-acc:CM000458.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:49:18 prefetch.2.10.7: 10) Downloading 'ncbi-acc:CM000459.1?vdb-ctx=refseq'... 2020-06-29T12:49:18 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:49:29 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:49:29 prefetch.2.10.7: 10) 'ncbi-acc:CM000459.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:49:29 prefetch.2.10.7: 11) Downloading 'ncbi-acc:FA000001.1?vdb-ctx=refseq'... 2020-06-29T12:49:29 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:49:45 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:49:45 prefetch.2.10.7: 11) 'ncbi-acc:FA000001.1?vdb-ctx=refseq' was downloaded successfully Read 24221131 spots for SRR2124121/SRR2124121.sra Written 24221131 spots for SRR2124121/SRR2124121.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: 00:06:51 24221131 reads; of these: 24221131 (100.00%) were unpaired; of these: 1359312 (5.61%) aligned 0 times 17349545 (71.63%) aligned exactly 1 time 5512274 (22.76%) aligned >1 times 94.39% overall alignment rate Time searching: 00:06:51 Overall time: 00:06:51 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] 2378407 / 22861819 = 0.1040 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 22:10:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.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 22:10:55: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:10:55: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:11:01: 1000000 INFO @ Mon, 29 Jun 2020 22:11:08: 2000000 INFO @ Mon, 29 Jun 2020 22:11:15: 3000000 INFO @ Mon, 29 Jun 2020 22:11:21: 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 22:11:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.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 22:11:25: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:11:25: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:11:27: 5000000 INFO @ Mon, 29 Jun 2020 22:11:31: 1000000 INFO @ Mon, 29 Jun 2020 22:11:34: 6000000 INFO @ Mon, 29 Jun 2020 22:11:38: 2000000 INFO @ Mon, 29 Jun 2020 22:11:41: 7000000 INFO @ Mon, 29 Jun 2020 22:11:45: 3000000 INFO @ Mon, 29 Jun 2020 22:11:47: 8000000 INFO @ Mon, 29 Jun 2020 22:11:51: 4000000 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 22:11:54: 9000000 INFO @ Mon, 29 Jun 2020 22:11:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.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 22:11:55: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:11:55: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:11:58: 5000000 INFO @ Mon, 29 Jun 2020 22:12:01: 10000000 INFO @ Mon, 29 Jun 2020 22:12:02: 1000000 INFO @ Mon, 29 Jun 2020 22:12:05: 6000000 INFO @ Mon, 29 Jun 2020 22:12:08: 11000000 INFO @ Mon, 29 Jun 2020 22:12:09: 2000000 INFO @ Mon, 29 Jun 2020 22:12:12: 7000000 INFO @ Mon, 29 Jun 2020 22:12:14: 12000000 INFO @ Mon, 29 Jun 2020 22:12:16: 3000000 INFO @ Mon, 29 Jun 2020 22:12:19: 8000000 INFO @ Mon, 29 Jun 2020 22:12:21: 13000000 INFO @ Mon, 29 Jun 2020 22:12:22: 4000000 INFO @ Mon, 29 Jun 2020 22:12:26: 9000000 INFO @ Mon, 29 Jun 2020 22:12:28: 14000000 INFO @ Mon, 29 Jun 2020 22:12:29: 5000000 INFO @ Mon, 29 Jun 2020 22:12:32: 10000000 INFO @ Mon, 29 Jun 2020 22:12:34: 15000000 INFO @ Mon, 29 Jun 2020 22:12:36: 6000000 INFO @ Mon, 29 Jun 2020 22:12:39: 11000000 INFO @ Mon, 29 Jun 2020 22:12:41: 16000000 INFO @ Mon, 29 Jun 2020 22:12:43: 7000000 INFO @ Mon, 29 Jun 2020 22:12:45: 12000000 INFO @ Mon, 29 Jun 2020 22:12:48: 17000000 INFO @ Mon, 29 Jun 2020 22:12:50: 8000000 INFO @ Mon, 29 Jun 2020 22:12:52: 13000000 INFO @ Mon, 29 Jun 2020 22:12:55: 18000000 INFO @ Mon, 29 Jun 2020 22:12:56: 9000000 INFO @ Mon, 29 Jun 2020 22:12:59: 14000000 INFO @ Mon, 29 Jun 2020 22:13:01: 19000000 INFO @ Mon, 29 Jun 2020 22:13:03: 10000000 INFO @ Mon, 29 Jun 2020 22:13:05: 15000000 INFO @ Mon, 29 Jun 2020 22:13:08: 20000000 INFO @ Mon, 29 Jun 2020 22:13:10: 11000000 INFO @ Mon, 29 Jun 2020 22:13:11: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:13:11: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:13:11: #1 total tags in treatment: 20483412 INFO @ Mon, 29 Jun 2020 22:13:11: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:13:11: #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 22:13:12: #1 tags after filtering in treatment: 20483412 INFO @ Mon, 29 Jun 2020 22:13:12: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:13:12: #1 finished! INFO @ Mon, 29 Jun 2020 22:13:12: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:13:12: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:13:12: 16000000 INFO @ Mon, 29 Jun 2020 22:13:13: #2 number of paired peaks: 66 WARNING @ Mon, 29 Jun 2020 22:13:13: Too few paired peaks (66) 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 22:13:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.05_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/SRX1115692/SRX1115692.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:13:16: 12000000 INFO @ Mon, 29 Jun 2020 22:13:19: 17000000 INFO @ Mon, 29 Jun 2020 22:13:23: 13000000 INFO @ Mon, 29 Jun 2020 22:13:26: 18000000 INFO @ Mon, 29 Jun 2020 22:13:29: 14000000 INFO @ Mon, 29 Jun 2020 22:13:32: 19000000 INFO @ Mon, 29 Jun 2020 22:13:36: 15000000 INFO @ Mon, 29 Jun 2020 22:13:39: 20000000 INFO @ Mon, 29 Jun 2020 22:13:42: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:13:42: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:13:42: #1 total tags in treatment: 20483412 INFO @ Mon, 29 Jun 2020 22:13:42: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:13:42: #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 22:13:42: #1 tags after filtering in treatment: 20483412 INFO @ Mon, 29 Jun 2020 22:13:42: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:13:42: #1 finished! INFO @ Mon, 29 Jun 2020 22:13:42: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:13:42: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:13:43: 16000000 INFO @ Mon, 29 Jun 2020 22:13:44: #2 number of paired peaks: 66 WARNING @ Mon, 29 Jun 2020 22:13:44: Too few paired peaks (66) 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 22:13:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.10_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/SRX1115692/SRX1115692.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:13:49: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:13:56: 18000000 INFO @ Mon, 29 Jun 2020 22:14:02: 19000000 INFO @ Mon, 29 Jun 2020 22:14:09: 20000000 INFO @ Mon, 29 Jun 2020 22:14:12: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:14:12: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:14:12: #1 total tags in treatment: 20483412 INFO @ Mon, 29 Jun 2020 22:14:12: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:14:12: #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 22:14:12: #1 tags after filtering in treatment: 20483412 INFO @ Mon, 29 Jun 2020 22:14:12: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:14:12: #1 finished! INFO @ Mon, 29 Jun 2020 22:14:12: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:14:12: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:14:14: #2 number of paired peaks: 66 WARNING @ Mon, 29 Jun 2020 22:14:14: Too few paired peaks (66) 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 22:14:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.20_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/SRX1115692/SRX1115692.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115692/SRX1115692.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。