Job ID = 6528523 SRX = SRX969920 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:06:55 prefetch.2.10.7: 1) Downloading 'SRR1931636'... 2020-06-29T15:06:55 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:10:32 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:10:32 prefetch.2.10.7: 1) 'SRR1931636' was downloaded successfully Read 35789881 spots for SRR1931636/SRR1931636.sra Written 35789881 spots for SRR1931636/SRR1931636.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: 00:08:42 35789881 reads; of these: 35789881 (100.00%) were unpaired; of these: 787995 (2.20%) aligned 0 times 29361548 (82.04%) aligned exactly 1 time 5640338 (15.76%) aligned >1 times 97.80% overall alignment rate Time searching: 00:08:42 Overall time: 00:08:42 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 16 files... [bam_rmdupse_core] 14896198 / 35001886 = 0.4256 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 00:34:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.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 00:34:25: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:34:25: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:34:31: 1000000 INFO @ Tue, 30 Jun 2020 00:34:36: 2000000 INFO @ Tue, 30 Jun 2020 00:34:42: 3000000 INFO @ Tue, 30 Jun 2020 00:34:48: 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 @ Tue, 30 Jun 2020 00:34:54: 5000000 INFO @ Tue, 30 Jun 2020 00:34:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.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 00:34:54: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:34:54: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:35:01: 6000000 INFO @ Tue, 30 Jun 2020 00:35:01: 1000000 INFO @ Tue, 30 Jun 2020 00:35:08: 2000000 INFO @ Tue, 30 Jun 2020 00:35:08: 7000000 INFO @ Tue, 30 Jun 2020 00:35:15: 3000000 INFO @ Tue, 30 Jun 2020 00:35:15: 8000000 INFO @ Tue, 30 Jun 2020 00:35:21: 4000000 INFO @ Tue, 30 Jun 2020 00:35:22: 9000000 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 00:35:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.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 00:35:25: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:35:25: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:35:28: 5000000 INFO @ Tue, 30 Jun 2020 00:35:29: 10000000 INFO @ Tue, 30 Jun 2020 00:35:31: 1000000 INFO @ Tue, 30 Jun 2020 00:35:35: 6000000 INFO @ Tue, 30 Jun 2020 00:35:35: 11000000 INFO @ Tue, 30 Jun 2020 00:35:38: 2000000 INFO @ Tue, 30 Jun 2020 00:35:41: 7000000 INFO @ Tue, 30 Jun 2020 00:35:42: 12000000 INFO @ Tue, 30 Jun 2020 00:35:45: 3000000 INFO @ Tue, 30 Jun 2020 00:35:48: 8000000 INFO @ Tue, 30 Jun 2020 00:35:49: 13000000 INFO @ Tue, 30 Jun 2020 00:35:52: 4000000 INFO @ Tue, 30 Jun 2020 00:35:55: 9000000 INFO @ Tue, 30 Jun 2020 00:35:56: 14000000 INFO @ Tue, 30 Jun 2020 00:35:58: 5000000 INFO @ Tue, 30 Jun 2020 00:36:02: 10000000 INFO @ Tue, 30 Jun 2020 00:36:03: 15000000 INFO @ Tue, 30 Jun 2020 00:36:05: 6000000 INFO @ Tue, 30 Jun 2020 00:36:08: 11000000 INFO @ Tue, 30 Jun 2020 00:36:10: 16000000 INFO @ Tue, 30 Jun 2020 00:36:12: 7000000 INFO @ Tue, 30 Jun 2020 00:36:15: 12000000 INFO @ Tue, 30 Jun 2020 00:36:17: 17000000 INFO @ Tue, 30 Jun 2020 00:36:19: 8000000 INFO @ Tue, 30 Jun 2020 00:36:22: 13000000 INFO @ Tue, 30 Jun 2020 00:36:24: 18000000 INFO @ Tue, 30 Jun 2020 00:36:26: 9000000 INFO @ Tue, 30 Jun 2020 00:36:28: 14000000 INFO @ Tue, 30 Jun 2020 00:36:30: 19000000 INFO @ Tue, 30 Jun 2020 00:36:33: 10000000 INFO @ Tue, 30 Jun 2020 00:36:35: 15000000 INFO @ Tue, 30 Jun 2020 00:36:37: 20000000 INFO @ Tue, 30 Jun 2020 00:36:38: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:36:38: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:36:38: #1 total tags in treatment: 20105688 INFO @ Tue, 30 Jun 2020 00:36:38: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:36:38: #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 00:36:38: #1 tags after filtering in treatment: 20105688 INFO @ Tue, 30 Jun 2020 00:36:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:36:38: #1 finished! INFO @ Tue, 30 Jun 2020 00:36:38: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:36:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:36:39: 11000000 INFO @ Tue, 30 Jun 2020 00:36:40: #2 number of paired peaks: 86 WARNING @ Tue, 30 Jun 2020 00:36:40: Too few paired peaks (86) 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 00:36:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.05_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/SRX969920/SRX969920.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:36:42: 16000000 INFO @ Tue, 30 Jun 2020 00:36:46: 12000000 INFO @ Tue, 30 Jun 2020 00:36:49: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:36:53: 13000000 INFO @ Tue, 30 Jun 2020 00:36:55: 18000000 INFO @ Tue, 30 Jun 2020 00:37:00: 14000000 INFO @ Tue, 30 Jun 2020 00:37:02: 19000000 INFO @ Tue, 30 Jun 2020 00:37:07: 15000000 INFO @ Tue, 30 Jun 2020 00:37:09: 20000000 INFO @ Tue, 30 Jun 2020 00:37:09: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:37:09: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:37:09: #1 total tags in treatment: 20105688 INFO @ Tue, 30 Jun 2020 00:37:09: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:37:09: #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 00:37:10: #1 tags after filtering in treatment: 20105688 INFO @ Tue, 30 Jun 2020 00:37:10: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:37:10: #1 finished! INFO @ Tue, 30 Jun 2020 00:37:10: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:37:10: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:37:11: #2 number of paired peaks: 86 WARNING @ Tue, 30 Jun 2020 00:37:11: Too few paired peaks (86) 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 00:37:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.10_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/SRX969920/SRX969920.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:37:13: 16000000 INFO @ Tue, 30 Jun 2020 00:37:19: 17000000 INFO @ Tue, 30 Jun 2020 00:37:26: 18000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 00:37:32: 19000000 INFO @ Tue, 30 Jun 2020 00:37:38: 20000000 INFO @ Tue, 30 Jun 2020 00:37:38: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:37:38: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:37:38: #1 total tags in treatment: 20105688 INFO @ Tue, 30 Jun 2020 00:37:38: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:37:38: #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 00:37:39: #1 tags after filtering in treatment: 20105688 INFO @ Tue, 30 Jun 2020 00:37:39: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:37:39: #1 finished! INFO @ Tue, 30 Jun 2020 00:37:39: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:37:39: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:37:40: #2 number of paired peaks: 86 WARNING @ Tue, 30 Jun 2020 00:37:40: Too few paired peaks (86) 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 00:37:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.20_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/SRX969920/SRX969920.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX969920/SRX969920.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling