Job ID = 6459793 SRX = SRX858994 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T13:48:04 prefetch.2.10.7: 1) Downloading 'SRR1779550'... 2020-06-21T13:48:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:48:39 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:48:39 prefetch.2.10.7: 'SRR1779550' is valid 2020-06-21T13:48:39 prefetch.2.10.7: 1) 'SRR1779550' was downloaded successfully 2020-06-21T13:49:31 prefetch.2.10.7: 'SRR1779550' has 10 unresolved dependencies 2020-06-21T13:49:31 prefetch.2.10.7: 2) Downloading 'ncbi-acc:AE013599.4?vdb-ctx=refseq'... 2020-06-21T13:49:31 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:49:50 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:49:50 prefetch.2.10.7: 2) 'ncbi-acc:AE013599.4?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:49:50 prefetch.2.10.7: 3) Downloading 'ncbi-acc:AE014134.5?vdb-ctx=refseq'... 2020-06-21T13:49:50 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:50:08 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:50:08 prefetch.2.10.7: 3) 'ncbi-acc:AE014134.5?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:50:08 prefetch.2.10.7: 4) Downloading 'ncbi-acc:AE014135.3?vdb-ctx=refseq'... 2020-06-21T13:50:08 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:50:21 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:50:21 prefetch.2.10.7: 4) 'ncbi-acc:AE014135.3?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:50:21 prefetch.2.10.7: 5) Downloading 'ncbi-acc:AE014296.4?vdb-ctx=refseq'... 2020-06-21T13:50:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:50:37 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:50:37 prefetch.2.10.7: 5) 'ncbi-acc:AE014296.4?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:50:37 prefetch.2.10.7: 6) Downloading 'ncbi-acc:AE014297.2?vdb-ctx=refseq'... 2020-06-21T13:50:37 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:50:55 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:50:55 prefetch.2.10.7: 6) 'ncbi-acc:AE014297.2?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:50:55 prefetch.2.10.7: 7) Downloading 'ncbi-acc:AE014298.4?vdb-ctx=refseq'... 2020-06-21T13:50:55 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:51:12 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:51:12 prefetch.2.10.7: 7) 'ncbi-acc:AE014298.4?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:51:12 prefetch.2.10.7: 8) Downloading 'ncbi-acc:CM000457.1?vdb-ctx=refseq'... 2020-06-21T13:51:12 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:51:25 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:51:25 prefetch.2.10.7: 8) 'ncbi-acc:CM000457.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:51:25 prefetch.2.10.7: 9) Downloading 'ncbi-acc:CM000458.1?vdb-ctx=refseq'... 2020-06-21T13:51:25 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:51:39 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:51:39 prefetch.2.10.7: 9) 'ncbi-acc:CM000458.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:51:39 prefetch.2.10.7: 10) Downloading 'ncbi-acc:CM000459.1?vdb-ctx=refseq'... 2020-06-21T13:51:39 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:51:51 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:51:51 prefetch.2.10.7: 10) 'ncbi-acc:CM000459.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:51:51 prefetch.2.10.7: 11) Downloading 'ncbi-acc:FA000001.1?vdb-ctx=refseq'... 2020-06-21T13:51:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:52:06 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:52:06 prefetch.2.10.7: 11) 'ncbi-acc:FA000001.1?vdb-ctx=refseq' was downloaded successfully Read 7714556 spots for SRR1779550/SRR1779550.sra Written 7714556 spots for SRR1779550/SRR1779550.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: 00:00:59 7714556 reads; of these: 7714556 (100.00%) were unpaired; of these: 143021 (1.85%) aligned 0 times 7336416 (95.10%) aligned exactly 1 time 235119 (3.05%) aligned >1 times 98.15% overall alignment rate Time searching: 00:00:59 Overall time: 00:00:59 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_rmdupse_core] 1272 / 7571535 = 0.0002 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 @ Sun, 21 Jun 2020 22:55:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.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 @ Sun, 21 Jun 2020 22:55:31: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:55:31: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:55:37: 1000000 INFO @ Sun, 21 Jun 2020 22:55:42: 2000000 INFO @ Sun, 21 Jun 2020 22:55:48: 3000000 INFO @ Sun, 21 Jun 2020 22:55:53: 4000000 INFO @ Sun, 21 Jun 2020 22:55:59: 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 @ Sun, 21 Jun 2020 22:56:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.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 @ Sun, 21 Jun 2020 22:56:02: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:56:02: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:56:05: 6000000 INFO @ Sun, 21 Jun 2020 22:56:08: 1000000 INFO @ Sun, 21 Jun 2020 22:56:11: 7000000 INFO @ Sun, 21 Jun 2020 22:56:14: 2000000 INFO @ Sun, 21 Jun 2020 22:56:15: #1 tag size is determined as 34 bps INFO @ Sun, 21 Jun 2020 22:56:15: #1 tag size = 34 INFO @ Sun, 21 Jun 2020 22:56:15: #1 total tags in treatment: 7570263 INFO @ Sun, 21 Jun 2020 22:56:15: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:56:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 22:56:15: #1 tags after filtering in treatment: 7569864 INFO @ Sun, 21 Jun 2020 22:56:15: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:56:15: #1 finished! INFO @ Sun, 21 Jun 2020 22:56:15: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:56:15: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:56:16: #2 number of paired peaks: 10 WARNING @ Sun, 21 Jun 2020 22:56:16: Too few paired peaks (10) 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 @ Sun, 21 Jun 2020 22:56:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.05_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/dm6/SRX858994/SRX858994.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:56:20: 3000000 INFO @ Sun, 21 Jun 2020 22:56:25: 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 @ Sun, 21 Jun 2020 22:56:31: 5000000 INFO @ Sun, 21 Jun 2020 22:56:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.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 @ Sun, 21 Jun 2020 22:56:32: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:56:32: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:56:37: 6000000 INFO @ Sun, 21 Jun 2020 22:56:38: 1000000 INFO @ Sun, 21 Jun 2020 22:56:44: 7000000 INFO @ Sun, 21 Jun 2020 22:56:44: 2000000 INFO @ Sun, 21 Jun 2020 22:56:47: #1 tag size is determined as 34 bps INFO @ Sun, 21 Jun 2020 22:56:47: #1 tag size = 34 INFO @ Sun, 21 Jun 2020 22:56:47: #1 total tags in treatment: 7570263 INFO @ Sun, 21 Jun 2020 22:56:47: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:56:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 22:56:48: #1 tags after filtering in treatment: 7569864 INFO @ Sun, 21 Jun 2020 22:56:48: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:56:48: #1 finished! INFO @ Sun, 21 Jun 2020 22:56:48: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:56:48: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:56:48: #2 number of paired peaks: 10 WARNING @ Sun, 21 Jun 2020 22:56:48: Too few paired peaks (10) 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 @ Sun, 21 Jun 2020 22:56:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.10_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/dm6/SRX858994/SRX858994.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:56:51: 3000000 INFO @ Sun, 21 Jun 2020 22:56:56: 4000000 INFO @ Sun, 21 Jun 2020 22:57:02: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 22:57:08: 6000000 INFO @ Sun, 21 Jun 2020 22:57:15: 7000000 INFO @ Sun, 21 Jun 2020 22:57:18: #1 tag size is determined as 34 bps INFO @ Sun, 21 Jun 2020 22:57:18: #1 tag size = 34 INFO @ Sun, 21 Jun 2020 22:57:18: #1 total tags in treatment: 7570263 INFO @ Sun, 21 Jun 2020 22:57:18: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:57:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 22:57:19: #1 tags after filtering in treatment: 7569864 INFO @ Sun, 21 Jun 2020 22:57:19: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:57:19: #1 finished! INFO @ Sun, 21 Jun 2020 22:57:19: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:57:19: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:57:19: #2 number of paired peaks: 10 WARNING @ Sun, 21 Jun 2020 22:57:19: Too few paired peaks (10) 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 @ Sun, 21 Jun 2020 22:57:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.20_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/dm6/SRX858994/SRX858994.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX858994/SRX858994.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。