Job ID = 6527561 SRX = SRX1115695 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:11:49 prefetch.2.10.7: 1) Downloading 'SRR2124124'... 2020-06-29T13:11:49 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:14:22 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:14:22 prefetch.2.10.7: 1) 'SRR2124124' was downloaded successfully 2020-06-29T13:15:14 prefetch.2.10.7: 'SRR2124124' has 10 unresolved dependencies 2020-06-29T13:15:14 prefetch.2.10.7: 2) Downloading 'ncbi-acc:AE013599.4?vdb-ctx=refseq'... 2020-06-29T13:15:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:15:32 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:15:32 prefetch.2.10.7: 2) 'ncbi-acc:AE013599.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:15:32 prefetch.2.10.7: 3) Downloading 'ncbi-acc:AE014134.5?vdb-ctx=refseq'... 2020-06-29T13:15:32 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:15:47 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:15:47 prefetch.2.10.7: 3) 'ncbi-acc:AE014134.5?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:15:47 prefetch.2.10.7: 4) Downloading 'ncbi-acc:AE014135.3?vdb-ctx=refseq'... 2020-06-29T13:15:47 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:15:59 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:15:59 prefetch.2.10.7: 4) 'ncbi-acc:AE014135.3?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:15:59 prefetch.2.10.7: 5) Downloading 'ncbi-acc:AE014296.4?vdb-ctx=refseq'... 2020-06-29T13:15:59 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:16:17 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:16:17 prefetch.2.10.7: 5) 'ncbi-acc:AE014296.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:16:17 prefetch.2.10.7: 6) Downloading 'ncbi-acc:AE014297.2?vdb-ctx=refseq'... 2020-06-29T13:16:17 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:16:31 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:16:31 prefetch.2.10.7: 6) 'ncbi-acc:AE014297.2?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:16:31 prefetch.2.10.7: 7) Downloading 'ncbi-acc:AE014298.4?vdb-ctx=refseq'... 2020-06-29T13:16:31 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:16:45 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:16:45 prefetch.2.10.7: 7) 'ncbi-acc:AE014298.4?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:16:45 prefetch.2.10.7: 8) Downloading 'ncbi-acc:CM000457.1?vdb-ctx=refseq'... 2020-06-29T13:16:45 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:16:55 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:16:55 prefetch.2.10.7: 8) 'ncbi-acc:CM000457.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:16:55 prefetch.2.10.7: 9) Downloading 'ncbi-acc:CM000458.1?vdb-ctx=refseq'... 2020-06-29T13:16:55 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:17:05 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:17:05 prefetch.2.10.7: 9) 'ncbi-acc:CM000458.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:17:05 prefetch.2.10.7: 10) Downloading 'ncbi-acc:CM000459.1?vdb-ctx=refseq'... 2020-06-29T13:17:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:17:19 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:17:19 prefetch.2.10.7: 10) 'ncbi-acc:CM000459.1?vdb-ctx=refseq' was downloaded successfully 2020-06-29T13:17:19 prefetch.2.10.7: 11) Downloading 'ncbi-acc:FA000001.1?vdb-ctx=refseq'... 2020-06-29T13:17:19 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:17:32 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:17:32 prefetch.2.10.7: 11) 'ncbi-acc:FA000001.1?vdb-ctx=refseq' was downloaded successfully Read 27945773 spots for SRR2124124/SRR2124124.sra Written 27945773 spots for SRR2124124/SRR2124124.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: 00:08:12 27945773 reads; of these: 27945773 (100.00%) were unpaired; of these: 920675 (3.29%) aligned 0 times 20516675 (73.42%) aligned exactly 1 time 6508423 (23.29%) aligned >1 times 96.71% overall alignment rate Time searching: 00:08:12 Overall time: 00:08:12 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] 3149019 / 27025098 = 0.1165 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 22:38:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.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 22:38:16: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:38:16: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:38:21: 1000000 INFO @ Mon, 29 Jun 2020 22:38:26: 2000000 INFO @ Mon, 29 Jun 2020 22:38:31: 3000000 INFO @ Mon, 29 Jun 2020 22:38:36: 4000000 INFO @ Mon, 29 Jun 2020 22:38:41: 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 22:38:46: 6000000 INFO @ Mon, 29 Jun 2020 22:38:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.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 22:38:46: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:38:46: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:38:51: 7000000 INFO @ Mon, 29 Jun 2020 22:38:52: 1000000 INFO @ Mon, 29 Jun 2020 22:38:56: 8000000 INFO @ Mon, 29 Jun 2020 22:38:58: 2000000 INFO @ Mon, 29 Jun 2020 22:39:02: 9000000 INFO @ Mon, 29 Jun 2020 22:39:04: 3000000 INFO @ Mon, 29 Jun 2020 22:39:07: 10000000 INFO @ Mon, 29 Jun 2020 22:39:10: 4000000 INFO @ Mon, 29 Jun 2020 22:39:12: 11000000 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 22:39:16: 5000000 INFO @ Mon, 29 Jun 2020 22:39:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.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 22:39:16: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:39:16: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:39:17: 12000000 INFO @ Mon, 29 Jun 2020 22:39:22: 1000000 INFO @ Mon, 29 Jun 2020 22:39:22: 6000000 INFO @ Mon, 29 Jun 2020 22:39:22: 13000000 INFO @ Mon, 29 Jun 2020 22:39:27: 2000000 INFO @ Mon, 29 Jun 2020 22:39:27: 14000000 INFO @ Mon, 29 Jun 2020 22:39:28: 7000000 INFO @ Mon, 29 Jun 2020 22:39:32: 3000000 INFO @ Mon, 29 Jun 2020 22:39:33: 15000000 INFO @ Mon, 29 Jun 2020 22:39:34: 8000000 INFO @ Mon, 29 Jun 2020 22:39:38: 4000000 INFO @ Mon, 29 Jun 2020 22:39:38: 16000000 INFO @ Mon, 29 Jun 2020 22:39:40: 9000000 INFO @ Mon, 29 Jun 2020 22:39:43: 5000000 INFO @ Mon, 29 Jun 2020 22:39:43: 17000000 INFO @ Mon, 29 Jun 2020 22:39:45: 10000000 INFO @ Mon, 29 Jun 2020 22:39:48: 6000000 INFO @ Mon, 29 Jun 2020 22:39:48: 18000000 INFO @ Mon, 29 Jun 2020 22:39:51: 11000000 INFO @ Mon, 29 Jun 2020 22:39:53: 7000000 INFO @ Mon, 29 Jun 2020 22:39:54: 19000000 INFO @ Mon, 29 Jun 2020 22:39:57: 12000000 INFO @ Mon, 29 Jun 2020 22:39:58: 8000000 INFO @ Mon, 29 Jun 2020 22:39:59: 20000000 INFO @ Mon, 29 Jun 2020 22:40:03: 13000000 INFO @ Mon, 29 Jun 2020 22:40:04: 9000000 INFO @ Mon, 29 Jun 2020 22:40:05: 21000000 INFO @ Mon, 29 Jun 2020 22:40:08: 14000000 INFO @ Mon, 29 Jun 2020 22:40:09: 10000000 INFO @ Mon, 29 Jun 2020 22:40:10: 22000000 INFO @ Mon, 29 Jun 2020 22:40:14: 15000000 INFO @ Mon, 29 Jun 2020 22:40:14: 11000000 INFO @ Mon, 29 Jun 2020 22:40:15: 23000000 INFO @ Mon, 29 Jun 2020 22:40:19: 12000000 INFO @ Mon, 29 Jun 2020 22:40:20: 16000000 INFO @ Mon, 29 Jun 2020 22:40:20: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:40:20: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:40:20: #1 total tags in treatment: 23876079 INFO @ Mon, 29 Jun 2020 22:40:20: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:40:20: #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 22:40:20: #1 tags after filtering in treatment: 23876079 INFO @ Mon, 29 Jun 2020 22:40:20: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:40:20: #1 finished! INFO @ Mon, 29 Jun 2020 22:40:20: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:40:20: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:40:22: #2 number of paired peaks: 6 WARNING @ Mon, 29 Jun 2020 22:40:22: Too few paired peaks (6) 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 22:40:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.05_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/SRX1115695/SRX1115695.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:40:24: 13000000 INFO @ Mon, 29 Jun 2020 22:40:26: 17000000 INFO @ Mon, 29 Jun 2020 22:40:30: 14000000 INFO @ Mon, 29 Jun 2020 22:40:32: 18000000 INFO @ Mon, 29 Jun 2020 22:40:35: 15000000 INFO @ Mon, 29 Jun 2020 22:40:38: 19000000 INFO @ Mon, 29 Jun 2020 22:40:40: 16000000 INFO @ Mon, 29 Jun 2020 22:40:44: 20000000 INFO @ Mon, 29 Jun 2020 22:40:45: 17000000 INFO @ Mon, 29 Jun 2020 22:40:50: 21000000 INFO @ Mon, 29 Jun 2020 22:40:50: 18000000 INFO @ Mon, 29 Jun 2020 22:40:56: 19000000 INFO @ Mon, 29 Jun 2020 22:40:56: 22000000 INFO @ Mon, 29 Jun 2020 22:41:01: 20000000 INFO @ Mon, 29 Jun 2020 22:41:02: 23000000 INFO @ Mon, 29 Jun 2020 22:41:06: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:41:08: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:41:08: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:41:08: #1 total tags in treatment: 23876079 INFO @ Mon, 29 Jun 2020 22:41:08: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:41:08: #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 22:41:08: #1 tags after filtering in treatment: 23876079 INFO @ Mon, 29 Jun 2020 22:41:08: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:41:08: #1 finished! INFO @ Mon, 29 Jun 2020 22:41:08: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:41:08: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:41:10: #2 number of paired peaks: 6 WARNING @ Mon, 29 Jun 2020 22:41:10: Too few paired peaks (6) 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 22:41:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.10_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/SRX1115695/SRX1115695.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:41:11: 22000000 INFO @ Mon, 29 Jun 2020 22:41:16: 23000000 INFO @ Mon, 29 Jun 2020 22:41:21: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:41:21: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:41:21: #1 total tags in treatment: 23876079 INFO @ Mon, 29 Jun 2020 22:41:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:41:21: #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 22:41:21: #1 tags after filtering in treatment: 23876079 INFO @ Mon, 29 Jun 2020 22:41:21: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:41:21: #1 finished! INFO @ Mon, 29 Jun 2020 22:41:21: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:41:21: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:41:23: #2 number of paired peaks: 6 WARNING @ Mon, 29 Jun 2020 22:41:23: Too few paired peaks (6) 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 22:41:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.20_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/SRX1115695/SRX1115695.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1115695/SRX1115695.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。