Job ID = 6528497 SRX = SRX764276 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:09:40 prefetch.2.10.7: 1) Downloading 'SRR1657648'... 2020-06-29T15:09:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:12:49 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:12:49 prefetch.2.10.7: 1) 'SRR1657648' was downloaded successfully 2020-06-29T15:13:41 prefetch.2.10.7: 'SRR1657648' has 10 unresolved dependencies 2020-06-29T15:13:41 prefetch.2.10.7: 2) Downloading 'ncbi-acc:AE013599.4?vdb-ctx=refseq'... 2020-06-29T15:13:41 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:13:59 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:13:59 prefetch.2.10.7: 2) 'ncbi-acc:AE013599.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T15:13:59 prefetch.2.10.7: 3) Downloading 'ncbi-acc:AE014134.5?vdb-ctx=refseq'... 2020-06-29T15:13:59 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:14:18 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:14:18 prefetch.2.10.7: 3) 'ncbi-acc:AE014134.5?vdb-ctx=refseq' was downloaded successfully 2020-06-29T15:14:18 prefetch.2.10.7: 4) Downloading 'ncbi-acc:AE014135.3?vdb-ctx=refseq'... 2020-06-29T15:14:18 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:14:30 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:14:30 prefetch.2.10.7: 4) 'ncbi-acc:AE014135.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T15:14:30 prefetch.2.10.7: 5) Downloading 'ncbi-acc:AE014296.4?vdb-ctx=refseq'... 2020-06-29T15:14:30 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:15:42 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:15:42 prefetch.2.10.7: 5) 'ncbi-acc:AE014296.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T15:15:42 prefetch.2.10.7: 6) Downloading 'ncbi-acc:AE014297.2?vdb-ctx=refseq'... 2020-06-29T15:15:42 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:16:00 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:16:00 prefetch.2.10.7: 6) 'ncbi-acc:AE014297.2?vdb-ctx=refseq' was downloaded successfully 2020-06-29T15:16:00 prefetch.2.10.7: 7) Downloading 'ncbi-acc:AE014298.4?vdb-ctx=refseq'... 2020-06-29T15:16:00 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:16:19 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:16:19 prefetch.2.10.7: 7) 'ncbi-acc:AE014298.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T15:16:19 prefetch.2.10.7: 8) Downloading 'ncbi-acc:CM000457.1?vdb-ctx=refseq'... 2020-06-29T15:16:19 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:16:33 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:16:33 prefetch.2.10.7: 8) 'ncbi-acc:CM000457.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T15:16:33 prefetch.2.10.7: 9) Downloading 'ncbi-acc:CM000458.1?vdb-ctx=refseq'... 2020-06-29T15:16:33 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:16:46 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:16:46 prefetch.2.10.7: 9) 'ncbi-acc:CM000458.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T15:16:46 prefetch.2.10.7: 10) Downloading 'ncbi-acc:CM000459.1?vdb-ctx=refseq'... 2020-06-29T15:16:46 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:16:55 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:16:55 prefetch.2.10.7: 10) 'ncbi-acc:CM000459.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T15:16:55 prefetch.2.10.7: 11) Downloading 'ncbi-acc:FA000001.1?vdb-ctx=refseq'... 2020-06-29T15:16:55 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:17:08 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:17:08 prefetch.2.10.7: 11) 'ncbi-acc:FA000001.1?vdb-ctx=refseq' was downloaded successfully Read 29984679 spots for SRR1657648/SRR1657648.sra Written 29984679 spots for SRR1657648/SRR1657648.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:06:55 29984679 reads; of these: 29984679 (100.00%) were unpaired; of these: 9509233 (31.71%) aligned 0 times 14315366 (47.74%) aligned exactly 1 time 6160080 (20.54%) aligned >1 times 68.29% overall alignment rate Time searching: 00:06:56 Overall time: 00:06:56 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] 1284043 / 20475446 = 0.0627 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 @ Tue, 30 Jun 2020 00:37:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.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 @ Tue, 30 Jun 2020 00:37:50: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:37:50: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:37:55: 1000000 INFO @ Tue, 30 Jun 2020 00:38:00: 2000000 INFO @ Tue, 30 Jun 2020 00:38:05: 3000000 INFO @ Tue, 30 Jun 2020 00:38:10: 4000000 INFO @ Tue, 30 Jun 2020 00:38:15: 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 @ Tue, 30 Jun 2020 00:38:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.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 @ Tue, 30 Jun 2020 00:38:20: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:38:20: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:38:20: 6000000 INFO @ Tue, 30 Jun 2020 00:38:25: 7000000 INFO @ Tue, 30 Jun 2020 00:38:25: 1000000 INFO @ Tue, 30 Jun 2020 00:38:30: 8000000 INFO @ Tue, 30 Jun 2020 00:38:30: 2000000 INFO @ Tue, 30 Jun 2020 00:38:35: 9000000 INFO @ Tue, 30 Jun 2020 00:38:36: 3000000 INFO @ Tue, 30 Jun 2020 00:38:41: 10000000 INFO @ Tue, 30 Jun 2020 00:38:41: 4000000 INFO @ Tue, 30 Jun 2020 00:38:46: 11000000 INFO @ Tue, 30 Jun 2020 00:38:46: 5000000 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 @ Tue, 30 Jun 2020 00:38:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.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 @ Tue, 30 Jun 2020 00:38:50: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:38:50: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:38:51: 12000000 INFO @ Tue, 30 Jun 2020 00:38:51: 6000000 INFO @ Tue, 30 Jun 2020 00:38:55: 1000000 INFO @ Tue, 30 Jun 2020 00:38:56: 13000000 INFO @ Tue, 30 Jun 2020 00:38:56: 7000000 INFO @ Tue, 30 Jun 2020 00:39:01: 2000000 INFO @ Tue, 30 Jun 2020 00:39:01: 14000000 INFO @ Tue, 30 Jun 2020 00:39:02: 8000000 INFO @ Tue, 30 Jun 2020 00:39:06: 3000000 INFO @ Tue, 30 Jun 2020 00:39:07: 15000000 INFO @ Tue, 30 Jun 2020 00:39:07: 9000000 INFO @ Tue, 30 Jun 2020 00:39:11: 4000000 INFO @ Tue, 30 Jun 2020 00:39:12: 10000000 INFO @ Tue, 30 Jun 2020 00:39:12: 16000000 INFO @ Tue, 30 Jun 2020 00:39:17: 5000000 INFO @ Tue, 30 Jun 2020 00:39:17: 11000000 INFO @ Tue, 30 Jun 2020 00:39:17: 17000000 INFO @ Tue, 30 Jun 2020 00:39:22: 6000000 INFO @ Tue, 30 Jun 2020 00:39:22: 12000000 INFO @ Tue, 30 Jun 2020 00:39:23: 18000000 INFO @ Tue, 30 Jun 2020 00:39:27: 7000000 INFO @ Tue, 30 Jun 2020 00:39:28: 13000000 INFO @ Tue, 30 Jun 2020 00:39:28: 19000000 INFO @ Tue, 30 Jun 2020 00:39:29: #1 tag size is determined as 47 bps INFO @ Tue, 30 Jun 2020 00:39:29: #1 tag size = 47 INFO @ Tue, 30 Jun 2020 00:39:29: #1 total tags in treatment: 19191403 INFO @ Tue, 30 Jun 2020 00:39:29: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:39:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:39:30: #1 tags after filtering in treatment: 19191403 INFO @ Tue, 30 Jun 2020 00:39:30: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:39:30: #1 finished! INFO @ Tue, 30 Jun 2020 00:39:30: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:39:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:39:31: #2 number of paired peaks: 28 WARNING @ Tue, 30 Jun 2020 00:39:31: Too few paired peaks (28) 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 @ Tue, 30 Jun 2020 00:39:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.05_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/SRX764276/SRX764276.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:39:32: 8000000 INFO @ Tue, 30 Jun 2020 00:39:33: 14000000 INFO @ Tue, 30 Jun 2020 00:39:37: 9000000 INFO @ Tue, 30 Jun 2020 00:39:38: 15000000 INFO @ Tue, 30 Jun 2020 00:39:43: 10000000 INFO @ Tue, 30 Jun 2020 00:39:44: 16000000 INFO @ Tue, 30 Jun 2020 00:39:48: 11000000 INFO @ Tue, 30 Jun 2020 00:39:50: 17000000 INFO @ Tue, 30 Jun 2020 00:39:53: 12000000 INFO @ Tue, 30 Jun 2020 00:39:56: 18000000 INFO @ Tue, 30 Jun 2020 00:39:58: 13000000 INFO @ Tue, 30 Jun 2020 00:40:01: 19000000 INFO @ Tue, 30 Jun 2020 00:40:03: #1 tag size is determined as 47 bps INFO @ Tue, 30 Jun 2020 00:40:03: #1 tag size = 47 INFO @ Tue, 30 Jun 2020 00:40:03: #1 total tags in treatment: 19191403 INFO @ Tue, 30 Jun 2020 00:40:03: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:40:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:40:03: #1 tags after filtering in treatment: 19191403 INFO @ Tue, 30 Jun 2020 00:40:03: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:40:03: #1 finished! INFO @ Tue, 30 Jun 2020 00:40:03: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:40:03: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:40:04: 14000000 INFO @ Tue, 30 Jun 2020 00:40:04: #2 number of paired peaks: 28 WARNING @ Tue, 30 Jun 2020 00:40:04: Too few paired peaks (28) 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 @ Tue, 30 Jun 2020 00:40:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.10_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/SRX764276/SRX764276.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:40:09: 15000000 INFO @ Tue, 30 Jun 2020 00:40:14: 16000000 INFO @ Tue, 30 Jun 2020 00:40:19: 17000000 INFO @ Tue, 30 Jun 2020 00:40:25: 18000000 INFO @ Tue, 30 Jun 2020 00:40:30: 19000000 INFO @ Tue, 30 Jun 2020 00:40:31: #1 tag size is determined as 47 bps INFO @ Tue, 30 Jun 2020 00:40:31: #1 tag size = 47 INFO @ Tue, 30 Jun 2020 00:40:31: #1 total tags in treatment: 19191403 INFO @ Tue, 30 Jun 2020 00:40:31: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:40:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:40:31: #1 tags after filtering in treatment: 19191403 INFO @ Tue, 30 Jun 2020 00:40:31: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:40:31: #1 finished! INFO @ Tue, 30 Jun 2020 00:40:31: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:40:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:40:33: #2 number of paired peaks: 28 WARNING @ Tue, 30 Jun 2020 00:40:33: Too few paired peaks (28) 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 @ Tue, 30 Jun 2020 00:40:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX764276/SRX764276.20_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。