Job ID = 6527714 SRX = SRX245833 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:24:07 prefetch.2.10.7: 1) Downloading 'SRR765853'... 2020-06-29T13:24:07 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:27:06 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:27:06 prefetch.2.10.7: 1) 'SRR765853' was downloaded successfully Read 28288635 spots for SRR765853/SRR765853.sra Written 28288635 spots for SRR765853/SRR765853.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: 00:08:03 28288635 reads; of these: 28288635 (100.00%) were unpaired; of these: 1277670 (4.52%) aligned 0 times 21093060 (74.56%) aligned exactly 1 time 5917905 (20.92%) aligned >1 times 95.48% overall alignment rate Time searching: 00:08:04 Overall time: 00:08:04 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 8 files... [bam_rmdupse_core] 2177382 / 27010965 = 0.0806 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 22:49:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.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 22:49:42: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:49:42: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:49:48: 1000000 INFO @ Mon, 29 Jun 2020 22:49:54: 2000000 INFO @ Mon, 29 Jun 2020 22:50:00: 3000000 INFO @ Mon, 29 Jun 2020 22:50:06: 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 22:50:12: 5000000 INFO @ Mon, 29 Jun 2020 22:50:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.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 22:50:12: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:50:12: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:50:18: 6000000 INFO @ Mon, 29 Jun 2020 22:50:18: 1000000 INFO @ Mon, 29 Jun 2020 22:50:24: 7000000 INFO @ Mon, 29 Jun 2020 22:50:25: 2000000 INFO @ Mon, 29 Jun 2020 22:50:31: 8000000 INFO @ Mon, 29 Jun 2020 22:50:31: 3000000 INFO @ Mon, 29 Jun 2020 22:50:37: 9000000 INFO @ Mon, 29 Jun 2020 22:50:38: 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 22:50:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.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 22:50:42: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:50:42: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:50:44: 10000000 INFO @ Mon, 29 Jun 2020 22:50:44: 5000000 INFO @ Mon, 29 Jun 2020 22:50:49: 1000000 INFO @ Mon, 29 Jun 2020 22:50:50: 11000000 INFO @ Mon, 29 Jun 2020 22:50:50: 6000000 INFO @ Mon, 29 Jun 2020 22:50:55: 2000000 INFO @ Mon, 29 Jun 2020 22:50:56: 12000000 INFO @ Mon, 29 Jun 2020 22:50:57: 7000000 INFO @ Mon, 29 Jun 2020 22:51:02: 3000000 INFO @ Mon, 29 Jun 2020 22:51:03: 13000000 INFO @ Mon, 29 Jun 2020 22:51:03: 8000000 INFO @ Mon, 29 Jun 2020 22:51:08: 4000000 INFO @ Mon, 29 Jun 2020 22:51:09: 14000000 INFO @ Mon, 29 Jun 2020 22:51:10: 9000000 INFO @ Mon, 29 Jun 2020 22:51:15: 5000000 INFO @ Mon, 29 Jun 2020 22:51:16: 15000000 INFO @ Mon, 29 Jun 2020 22:51:16: 10000000 INFO @ Mon, 29 Jun 2020 22:51:21: 6000000 INFO @ Mon, 29 Jun 2020 22:51:22: 16000000 INFO @ Mon, 29 Jun 2020 22:51:23: 11000000 INFO @ Mon, 29 Jun 2020 22:51:28: 7000000 INFO @ Mon, 29 Jun 2020 22:51:29: 17000000 INFO @ Mon, 29 Jun 2020 22:51:29: 12000000 INFO @ Mon, 29 Jun 2020 22:51:34: 8000000 INFO @ Mon, 29 Jun 2020 22:51:35: 18000000 INFO @ Mon, 29 Jun 2020 22:51:36: 13000000 INFO @ Mon, 29 Jun 2020 22:51:41: 9000000 INFO @ Mon, 29 Jun 2020 22:51:42: 19000000 INFO @ Mon, 29 Jun 2020 22:51:42: 14000000 INFO @ Mon, 29 Jun 2020 22:51:47: 10000000 INFO @ Mon, 29 Jun 2020 22:51:48: 20000000 INFO @ Mon, 29 Jun 2020 22:51:49: 15000000 INFO @ Mon, 29 Jun 2020 22:51:54: 11000000 INFO @ Mon, 29 Jun 2020 22:51:55: 21000000 INFO @ Mon, 29 Jun 2020 22:51:55: 16000000 INFO @ Mon, 29 Jun 2020 22:52:00: 12000000 INFO @ Mon, 29 Jun 2020 22:52:01: 22000000 INFO @ Mon, 29 Jun 2020 22:52:02: 17000000 INFO @ Mon, 29 Jun 2020 22:52:07: 13000000 INFO @ Mon, 29 Jun 2020 22:52:07: 23000000 INFO @ Mon, 29 Jun 2020 22:52:09: 18000000 INFO @ Mon, 29 Jun 2020 22:52:13: 14000000 INFO @ Mon, 29 Jun 2020 22:52:14: 24000000 INFO @ Mon, 29 Jun 2020 22:52:15: 19000000 INFO @ Mon, 29 Jun 2020 22:52:19: #1 tag size is determined as 42 bps INFO @ Mon, 29 Jun 2020 22:52:19: #1 tag size = 42 INFO @ Mon, 29 Jun 2020 22:52:19: #1 total tags in treatment: 24833583 INFO @ Mon, 29 Jun 2020 22:52:19: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:52:19: #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 22:52:19: #1 tags after filtering in treatment: 24833583 INFO @ Mon, 29 Jun 2020 22:52:19: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:52:19: #1 finished! INFO @ Mon, 29 Jun 2020 22:52:19: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:52:19: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:52:20: 15000000 INFO @ Mon, 29 Jun 2020 22:52:21: #2 number of paired peaks: 17 WARNING @ Mon, 29 Jun 2020 22:52:21: Too few paired peaks (17) 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 22:52:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.05_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/SRX245833/SRX245833.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:52:22: 20000000 INFO @ Mon, 29 Jun 2020 22:52:26: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:52:28: 21000000 INFO @ Mon, 29 Jun 2020 22:52:32: 17000000 INFO @ Mon, 29 Jun 2020 22:52:34: 22000000 INFO @ Mon, 29 Jun 2020 22:52:39: 18000000 INFO @ Mon, 29 Jun 2020 22:52:41: 23000000 INFO @ Mon, 29 Jun 2020 22:52:45: 19000000 INFO @ Mon, 29 Jun 2020 22:52:47: 24000000 INFO @ Mon, 29 Jun 2020 22:52:52: 20000000 INFO @ Mon, 29 Jun 2020 22:52:53: #1 tag size is determined as 42 bps INFO @ Mon, 29 Jun 2020 22:52:53: #1 tag size = 42 INFO @ Mon, 29 Jun 2020 22:52:53: #1 total tags in treatment: 24833583 INFO @ Mon, 29 Jun 2020 22:52:53: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:52:53: #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 22:52:53: #1 tags after filtering in treatment: 24833583 INFO @ Mon, 29 Jun 2020 22:52:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:52:53: #1 finished! INFO @ Mon, 29 Jun 2020 22:52:53: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:52:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:52:55: #2 number of paired peaks: 17 WARNING @ Mon, 29 Jun 2020 22:52:55: Too few paired peaks (17) 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 22:52:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.10_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/SRX245833/SRX245833.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:52:58: 21000000 INFO @ Mon, 29 Jun 2020 22:53:03: 22000000 INFO @ Mon, 29 Jun 2020 22:53:09: 23000000 INFO @ Mon, 29 Jun 2020 22:53:15: 24000000 INFO @ Mon, 29 Jun 2020 22:53:20: #1 tag size is determined as 42 bps INFO @ Mon, 29 Jun 2020 22:53:20: #1 tag size = 42 INFO @ Mon, 29 Jun 2020 22:53:20: #1 total tags in treatment: 24833583 INFO @ Mon, 29 Jun 2020 22:53:20: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:53:20: #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 22:53:21: #1 tags after filtering in treatment: 24833583 INFO @ Mon, 29 Jun 2020 22:53:21: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:53:21: #1 finished! INFO @ Mon, 29 Jun 2020 22:53:21: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:53:21: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:53:22: #2 number of paired peaks: 17 WARNING @ Mon, 29 Jun 2020 22:53:22: Too few paired peaks (17) 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 22:53:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.20_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/SRX245833/SRX245833.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245833/SRX245833.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。