Job ID = 6527502 SRX = SRX040612 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:42:33 prefetch.2.10.7: 1) Downloading 'SRR097981'... 2020-06-29T12:42:33 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:44:46 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:44:47 prefetch.2.10.7: 'SRR097981' is valid 2020-06-29T12:44:47 prefetch.2.10.7: 1) 'SRR097981' was downloaded successfully Read 15981209 spots for SRR097981/SRR097981.sra Written 15981209 spots for SRR097981/SRR097981.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: 00:03:30 15981209 reads; of these: 15981209 (100.00%) were unpaired; of these: 632686 (3.96%) aligned 0 times 13447763 (84.15%) aligned exactly 1 time 1900760 (11.89%) aligned >1 times 96.04% overall alignment rate Time searching: 00:03:30 Overall time: 00:03:30 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] 4490552 / 15348523 = 0.2926 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 21:58:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.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 21:58:11: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:58:11: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:58:17: 1000000 INFO @ Mon, 29 Jun 2020 21:58:24: 2000000 INFO @ Mon, 29 Jun 2020 21:58:30: 3000000 INFO @ Mon, 29 Jun 2020 21:58:36: 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 21:58:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.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 21:58:41: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:58:41: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:58:42: 5000000 INFO @ Mon, 29 Jun 2020 21:58:47: 1000000 INFO @ Mon, 29 Jun 2020 21:58:49: 6000000 INFO @ Mon, 29 Jun 2020 21:58:53: 2000000 INFO @ Mon, 29 Jun 2020 21:58:55: 7000000 INFO @ Mon, 29 Jun 2020 21:58:59: 3000000 INFO @ Mon, 29 Jun 2020 21:59:01: 8000000 INFO @ Mon, 29 Jun 2020 21:59:05: 4000000 INFO @ Mon, 29 Jun 2020 21:59:08: 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 @ Mon, 29 Jun 2020 21:59:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.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 21:59:11: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:59:11: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:59:12: 5000000 INFO @ Mon, 29 Jun 2020 21:59:14: 10000000 INFO @ Mon, 29 Jun 2020 21:59:18: 1000000 INFO @ Mon, 29 Jun 2020 21:59:18: 6000000 INFO @ Mon, 29 Jun 2020 21:59:20: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 21:59:20: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 21:59:20: #1 total tags in treatment: 10857971 INFO @ Mon, 29 Jun 2020 21:59:20: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:59:20: #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 21:59:20: #1 tags after filtering in treatment: 10857971 INFO @ Mon, 29 Jun 2020 21:59:20: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:59:20: #1 finished! INFO @ Mon, 29 Jun 2020 21:59:20: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:59:20: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:59:21: #2 number of paired peaks: 92 WARNING @ Mon, 29 Jun 2020 21:59:21: Too few paired peaks (92) 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 21:59:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.05_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/SRX040612/SRX040612.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:59:24: 7000000 INFO @ Mon, 29 Jun 2020 21:59:24: 2000000 INFO @ Mon, 29 Jun 2020 21:59:30: 8000000 INFO @ Mon, 29 Jun 2020 21:59:31: 3000000 INFO @ Mon, 29 Jun 2020 21:59:36: 9000000 INFO @ Mon, 29 Jun 2020 21:59:37: 4000000 INFO @ Mon, 29 Jun 2020 21:59:43: 10000000 INFO @ Mon, 29 Jun 2020 21:59:43: 5000000 INFO @ Mon, 29 Jun 2020 21:59:48: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 21:59:48: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 21:59:48: #1 total tags in treatment: 10857971 INFO @ Mon, 29 Jun 2020 21:59:48: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:59:48: #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 21:59:48: #1 tags after filtering in treatment: 10857971 INFO @ Mon, 29 Jun 2020 21:59:48: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:59:48: #1 finished! INFO @ Mon, 29 Jun 2020 21:59:48: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:59:48: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:59:49: #2 number of paired peaks: 92 WARNING @ Mon, 29 Jun 2020 21:59:49: Too few paired peaks (92) 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 21:59:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.10_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/SRX040612/SRX040612.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:59:49: 6000000 INFO @ Mon, 29 Jun 2020 21:59:56: 7000000 INFO @ Mon, 29 Jun 2020 22:00:02: 8000000 INFO @ Mon, 29 Jun 2020 22:00:08: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:00:14: 10000000 INFO @ Mon, 29 Jun 2020 22:00:19: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 22:00:19: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 22:00:19: #1 total tags in treatment: 10857971 INFO @ Mon, 29 Jun 2020 22:00:19: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:00:19: #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 22:00:20: #1 tags after filtering in treatment: 10857971 INFO @ Mon, 29 Jun 2020 22:00:20: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:00:20: #1 finished! INFO @ Mon, 29 Jun 2020 22:00:20: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:00:20: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:00:20: #2 number of paired peaks: 92 WARNING @ Mon, 29 Jun 2020 22:00:20: Too few paired peaks (92) 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 22:00:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.20_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/SRX040612/SRX040612.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX040612/SRX040612.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。