Job ID = 6527565 SRX = SRX1115699 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:38:41 prefetch.2.10.7: 1) Downloading 'SRR2124128'... 2020-06-29T12:38:41 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:41:02 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:41:02 prefetch.2.10.7: 1) 'SRR2124128' was downloaded successfully 2020-06-29T12:41:53 prefetch.2.10.7: 'SRR2124128' has 10 unresolved dependencies 2020-06-29T12:41:53 prefetch.2.10.7: 2) Downloading 'ncbi-acc:AE013599.4?vdb-ctx=refseq'... 2020-06-29T12:41:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:42:06 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:42:06 prefetch.2.10.7: 2) 'ncbi-acc:AE013599.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:42:06 prefetch.2.10.7: 3) Downloading 'ncbi-acc:AE014134.5?vdb-ctx=refseq'... 2020-06-29T12:42:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:42:19 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:42:19 prefetch.2.10.7: 3) 'ncbi-acc:AE014134.5?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:42:19 prefetch.2.10.7: 4) Downloading 'ncbi-acc:AE014135.3?vdb-ctx=refseq'... 2020-06-29T12:42:19 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:42:27 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:42:27 prefetch.2.10.7: 4) 'ncbi-acc:AE014135.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:42:27 prefetch.2.10.7: 5) Downloading 'ncbi-acc:AE014296.4?vdb-ctx=refseq'... 2020-06-29T12:42:27 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:42:43 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:42:43 prefetch.2.10.7: 5) 'ncbi-acc:AE014296.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:42:43 prefetch.2.10.7: 6) Downloading 'ncbi-acc:AE014297.2?vdb-ctx=refseq'... 2020-06-29T12:42:43 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:42:57 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:42:57 prefetch.2.10.7: 6) 'ncbi-acc:AE014297.2?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:42:57 prefetch.2.10.7: 7) Downloading 'ncbi-acc:AE014298.4?vdb-ctx=refseq'... 2020-06-29T12:42:57 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:43:14 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:43:14 prefetch.2.10.7: 7) 'ncbi-acc:AE014298.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:43:14 prefetch.2.10.7: 8) Downloading 'ncbi-acc:CM000457.1?vdb-ctx=refseq'... 2020-06-29T12:43:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:43:27 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:43:27 prefetch.2.10.7: 8) 'ncbi-acc:CM000457.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:43:27 prefetch.2.10.7: 9) Downloading 'ncbi-acc:CM000458.1?vdb-ctx=refseq'... 2020-06-29T12:43:27 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:43:36 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:43:37 prefetch.2.10.7: 9) 'ncbi-acc:CM000458.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:43:37 prefetch.2.10.7: 10) Downloading 'ncbi-acc:CM000459.1?vdb-ctx=refseq'... 2020-06-29T12:43:37 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:43:46 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:43:46 prefetch.2.10.7: 10) 'ncbi-acc:CM000459.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T12:43:46 prefetch.2.10.7: 11) Downloading 'ncbi-acc:FA000001.1?vdb-ctx=refseq'... 2020-06-29T12:43:46 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:43:58 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:43:58 prefetch.2.10.7: 11) 'ncbi-acc:FA000001.1?vdb-ctx=refseq' was downloaded successfully Read 23362502 spots for SRR2124128/SRR2124128.sra Written 23362502 spots for SRR2124128/SRR2124128.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: 00:07:22 23362502 reads; of these: 23362502 (100.00%) were unpaired; of these: 698641 (2.99%) aligned 0 times 17053524 (73.00%) aligned exactly 1 time 5610337 (24.01%) aligned >1 times 97.01% overall alignment rate Time searching: 00:07:22 Overall time: 00:07:22 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] 2612601 / 22663861 = 0.1153 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 22:05:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.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 22:05:18: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:05:18: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:05:25: 1000000 INFO @ Mon, 29 Jun 2020 22:05:32: 2000000 INFO @ Mon, 29 Jun 2020 22:05:38: 3000000 INFO @ Mon, 29 Jun 2020 22:05:45: 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 22:05:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.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 22:05:48: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:05:48: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:05:52: 5000000 INFO @ Mon, 29 Jun 2020 22:05:54: 1000000 INFO @ Mon, 29 Jun 2020 22:05:59: 6000000 INFO @ Mon, 29 Jun 2020 22:06:01: 2000000 INFO @ Mon, 29 Jun 2020 22:06:07: 7000000 INFO @ Mon, 29 Jun 2020 22:06:08: 3000000 INFO @ Mon, 29 Jun 2020 22:06:14: 8000000 INFO @ Mon, 29 Jun 2020 22:06:14: 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 22:06:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.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 22:06:18: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:06:18: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:06:21: 9000000 INFO @ Mon, 29 Jun 2020 22:06:21: 5000000 INFO @ Mon, 29 Jun 2020 22:06:25: 1000000 INFO @ Mon, 29 Jun 2020 22:06:28: 10000000 INFO @ Mon, 29 Jun 2020 22:06:29: 6000000 INFO @ Mon, 29 Jun 2020 22:06:33: 2000000 INFO @ Mon, 29 Jun 2020 22:06:36: 11000000 INFO @ Mon, 29 Jun 2020 22:06:37: 7000000 INFO @ Mon, 29 Jun 2020 22:06:41: 3000000 INFO @ Mon, 29 Jun 2020 22:06:43: 12000000 INFO @ Mon, 29 Jun 2020 22:06:44: 8000000 INFO @ Mon, 29 Jun 2020 22:06:48: 4000000 INFO @ Mon, 29 Jun 2020 22:06:51: 13000000 INFO @ Mon, 29 Jun 2020 22:06:52: 9000000 INFO @ Mon, 29 Jun 2020 22:06:56: 5000000 INFO @ Mon, 29 Jun 2020 22:06:58: 14000000 INFO @ Mon, 29 Jun 2020 22:06:59: 10000000 INFO @ Mon, 29 Jun 2020 22:07:03: 6000000 INFO @ Mon, 29 Jun 2020 22:07:05: 15000000 INFO @ Mon, 29 Jun 2020 22:07:07: 11000000 INFO @ Mon, 29 Jun 2020 22:07:11: 7000000 INFO @ Mon, 29 Jun 2020 22:07:13: 16000000 INFO @ Mon, 29 Jun 2020 22:07:14: 12000000 INFO @ Mon, 29 Jun 2020 22:07:18: 8000000 INFO @ Mon, 29 Jun 2020 22:07:20: 17000000 INFO @ Mon, 29 Jun 2020 22:07:22: 13000000 INFO @ Mon, 29 Jun 2020 22:07:26: 9000000 INFO @ Mon, 29 Jun 2020 22:07:28: 18000000 INFO @ Mon, 29 Jun 2020 22:07:29: 14000000 INFO @ Mon, 29 Jun 2020 22:07:33: 10000000 INFO @ Mon, 29 Jun 2020 22:07:35: 19000000 INFO @ Mon, 29 Jun 2020 22:07:37: 15000000 INFO @ Mon, 29 Jun 2020 22:07:41: 11000000 INFO @ Mon, 29 Jun 2020 22:07:42: 20000000 INFO @ Mon, 29 Jun 2020 22:07:43: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:07:43: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:07:43: #1 total tags in treatment: 20051260 INFO @ Mon, 29 Jun 2020 22:07:43: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:07:43: #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 22:07:43: #1 tags after filtering in treatment: 20051260 INFO @ Mon, 29 Jun 2020 22:07:43: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:07:43: #1 finished! INFO @ Mon, 29 Jun 2020 22:07:43: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:07:43: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:07:44: 16000000 INFO @ Mon, 29 Jun 2020 22:07:45: #2 number of paired peaks: 19 WARNING @ Mon, 29 Jun 2020 22:07:45: Too few paired peaks (19) 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 22:07:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.05_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/SRX1115699/SRX1115699.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:07:48: 12000000 INFO @ Mon, 29 Jun 2020 22:07:51: 17000000 INFO @ Mon, 29 Jun 2020 22:07:55: 13000000 INFO @ Mon, 29 Jun 2020 22:07:58: 18000000 INFO @ Mon, 29 Jun 2020 22:08:02: 14000000 INFO @ Mon, 29 Jun 2020 22:08:06: 19000000 INFO @ Mon, 29 Jun 2020 22:08:09: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:08:13: 20000000 INFO @ Mon, 29 Jun 2020 22:08:13: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:08:13: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:08:13: #1 total tags in treatment: 20051260 INFO @ Mon, 29 Jun 2020 22:08:13: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:08:13: #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 22:08:14: #1 tags after filtering in treatment: 20051260 INFO @ Mon, 29 Jun 2020 22:08:14: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:08:14: #1 finished! INFO @ Mon, 29 Jun 2020 22:08:14: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:08:14: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:08:15: #2 number of paired peaks: 19 WARNING @ Mon, 29 Jun 2020 22:08:15: Too few paired peaks (19) 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 22:08:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.10_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/SRX1115699/SRX1115699.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:08:15: 16000000 INFO @ Mon, 29 Jun 2020 22:08:22: 17000000 INFO @ Mon, 29 Jun 2020 22:08:28: 18000000 INFO @ Mon, 29 Jun 2020 22:08:34: 19000000 INFO @ Mon, 29 Jun 2020 22:08:41: 20000000 INFO @ Mon, 29 Jun 2020 22:08:41: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:08:41: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:08:41: #1 total tags in treatment: 20051260 INFO @ Mon, 29 Jun 2020 22:08:41: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:08:41: #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 22:08:42: #1 tags after filtering in treatment: 20051260 INFO @ Mon, 29 Jun 2020 22:08:42: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:08:42: #1 finished! INFO @ Mon, 29 Jun 2020 22:08:42: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:08:42: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:08:43: #2 number of paired peaks: 19 WARNING @ Mon, 29 Jun 2020 22:08:43: Too few paired peaks (19) 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 22:08:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.20_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/SRX1115699/SRX1115699.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115699/SRX1115699.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。