Job ID = 6527501 SRX = SRX040610 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:19:41 prefetch.2.10.7: 1) Downloading 'SRR097979'... 2020-06-29T12:19:41 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:21:34 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:21:35 prefetch.2.10.7: 'SRR097979' is valid 2020-06-29T12:21:35 prefetch.2.10.7: 1) 'SRR097979' was downloaded successfully Read 15624373 spots for SRR097979/SRR097979.sra Written 15624373 spots for SRR097979/SRR097979.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: 00:04:22 15624373 reads; of these: 15624373 (100.00%) were unpaired; of these: 683853 (4.38%) aligned 0 times 11828920 (75.71%) aligned exactly 1 time 3111600 (19.92%) aligned >1 times 95.62% overall alignment rate Time searching: 00:04:22 Overall time: 00:04:22 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_rmdupse_core] 2767663 / 14940520 = 0.1852 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 21:35:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.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 21:35:33: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:35:33: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:35:38: 1000000 INFO @ Mon, 29 Jun 2020 21:35:43: 2000000 INFO @ Mon, 29 Jun 2020 21:35:48: 3000000 INFO @ Mon, 29 Jun 2020 21:35:54: 4000000 INFO @ Mon, 29 Jun 2020 21:35:59: 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 @ Mon, 29 Jun 2020 21:36:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.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 21:36:03: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:36:03: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:36:05: 6000000 INFO @ Mon, 29 Jun 2020 21:36:08: 1000000 INFO @ Mon, 29 Jun 2020 21:36:10: 7000000 INFO @ Mon, 29 Jun 2020 21:36:14: 2000000 INFO @ Mon, 29 Jun 2020 21:36:16: 8000000 INFO @ Mon, 29 Jun 2020 21:36:20: 3000000 INFO @ Mon, 29 Jun 2020 21:36:22: 9000000 INFO @ Mon, 29 Jun 2020 21:36:25: 4000000 INFO @ Mon, 29 Jun 2020 21:36:28: 10000000 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 21:36:31: 5000000 INFO @ Mon, 29 Jun 2020 21:36:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.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 21:36:33: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:36:33: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:36:33: 11000000 INFO @ Mon, 29 Jun 2020 21:36:37: 6000000 INFO @ Mon, 29 Jun 2020 21:36:39: 1000000 INFO @ Mon, 29 Jun 2020 21:36:39: 12000000 INFO @ Mon, 29 Jun 2020 21:36:41: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 21:36:41: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 21:36:41: #1 total tags in treatment: 12172857 INFO @ Mon, 29 Jun 2020 21:36:41: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:36:41: #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 21:36:41: #1 tags after filtering in treatment: 12172857 INFO @ Mon, 29 Jun 2020 21:36:41: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:36:41: #1 finished! INFO @ Mon, 29 Jun 2020 21:36:41: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:36:41: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:36:42: #2 number of paired peaks: 50 WARNING @ Mon, 29 Jun 2020 21:36:42: Too few paired peaks (50) 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 21:36:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.05_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/SRX040610/SRX040610.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:36:43: 7000000 INFO @ Mon, 29 Jun 2020 21:36:45: 2000000 INFO @ Mon, 29 Jun 2020 21:36:49: 8000000 INFO @ Mon, 29 Jun 2020 21:36:50: 3000000 INFO @ Mon, 29 Jun 2020 21:36:55: 9000000 INFO @ Mon, 29 Jun 2020 21:36:56: 4000000 INFO @ Mon, 29 Jun 2020 21:37:00: 10000000 INFO @ Mon, 29 Jun 2020 21:37:01: 5000000 INFO @ Mon, 29 Jun 2020 21:37:06: 11000000 INFO @ Mon, 29 Jun 2020 21:37:07: 6000000 INFO @ Mon, 29 Jun 2020 21:37:11: 12000000 INFO @ Mon, 29 Jun 2020 21:37:12: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 21:37:12: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 21:37:12: #1 total tags in treatment: 12172857 INFO @ Mon, 29 Jun 2020 21:37:12: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:37:12: #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 21:37:13: 7000000 INFO @ Mon, 29 Jun 2020 21:37:13: #1 tags after filtering in treatment: 12172857 INFO @ Mon, 29 Jun 2020 21:37:13: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:37:13: #1 finished! INFO @ Mon, 29 Jun 2020 21:37:13: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:37:13: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:37:14: #2 number of paired peaks: 50 WARNING @ Mon, 29 Jun 2020 21:37:14: Too few paired peaks (50) 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 21:37:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.10_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/SRX040610/SRX040610.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:37:18: 8000000 INFO @ Mon, 29 Jun 2020 21:37:23: 9000000 INFO @ Mon, 29 Jun 2020 21:37:28: 10000000 INFO @ Mon, 29 Jun 2020 21:37:33: 11000000 INFO @ Mon, 29 Jun 2020 21:37:38: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 21:37:39: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 21:37:39: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 21:37:39: #1 total tags in treatment: 12172857 INFO @ Mon, 29 Jun 2020 21:37:39: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:37:39: #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 21:37:39: #1 tags after filtering in treatment: 12172857 INFO @ Mon, 29 Jun 2020 21:37:39: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:37:39: #1 finished! INFO @ Mon, 29 Jun 2020 21:37:39: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:37:39: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:37:40: #2 number of paired peaks: 50 WARNING @ Mon, 29 Jun 2020 21:37:40: Too few paired peaks (50) 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 21:37:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.20_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/SRX040610/SRX040610.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX040610/SRX040610.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。