Job ID = 6527557 SRX = SRX110797 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:37:12 prefetch.2.10.7: 1) Downloading 'SRR388379'... 2020-06-29T12:37:12 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:39:08 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:39:09 prefetch.2.10.7: 'SRR388379' is valid 2020-06-29T12:39:09 prefetch.2.10.7: 1) 'SRR388379' was downloaded successfully Read 23908946 spots for SRR388379/SRR388379.sra Written 23908946 spots for SRR388379/SRR388379.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: 00:08:41 23908946 reads; of these: 23908946 (100.00%) were unpaired; of these: 586550 (2.45%) aligned 0 times 11952712 (49.99%) aligned exactly 1 time 11369684 (47.55%) aligned >1 times 97.55% overall alignment rate Time searching: 00:08:41 Overall time: 00:08:41 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] 1740539 / 23322396 = 0.0746 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 21:54:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.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 21:54:56: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:54:56: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:55:02: 1000000 INFO @ Mon, 29 Jun 2020 21:55:07: 2000000 INFO @ Mon, 29 Jun 2020 21:55:13: 3000000 INFO @ Mon, 29 Jun 2020 21:55:19: 4000000 INFO @ Mon, 29 Jun 2020 21:55:24: 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 21:55:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.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 21:55:26: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:55:26: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:55:30: 6000000 INFO @ Mon, 29 Jun 2020 21:55:32: 1000000 INFO @ Mon, 29 Jun 2020 21:55:36: 7000000 INFO @ Mon, 29 Jun 2020 21:55:38: 2000000 INFO @ Mon, 29 Jun 2020 21:55:42: 8000000 INFO @ Mon, 29 Jun 2020 21:55:43: 3000000 INFO @ Mon, 29 Jun 2020 21:55:48: 9000000 INFO @ Mon, 29 Jun 2020 21:55:48: 4000000 INFO @ Mon, 29 Jun 2020 21:55:54: 5000000 INFO @ Mon, 29 Jun 2020 21:55:54: 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 21:55:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.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 21:55:56: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:55:56: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:55:59: 6000000 INFO @ Mon, 29 Jun 2020 21:56:00: 11000000 INFO @ Mon, 29 Jun 2020 21:56:02: 1000000 INFO @ Mon, 29 Jun 2020 21:56:05: 7000000 INFO @ Mon, 29 Jun 2020 21:56:06: 12000000 INFO @ Mon, 29 Jun 2020 21:56:08: 2000000 INFO @ Mon, 29 Jun 2020 21:56:10: 8000000 INFO @ Mon, 29 Jun 2020 21:56:13: 13000000 INFO @ Mon, 29 Jun 2020 21:56:13: 3000000 INFO @ Mon, 29 Jun 2020 21:56:16: 9000000 INFO @ Mon, 29 Jun 2020 21:56:19: 4000000 INFO @ Mon, 29 Jun 2020 21:56:19: 14000000 INFO @ Mon, 29 Jun 2020 21:56:22: 10000000 INFO @ Mon, 29 Jun 2020 21:56:24: 5000000 INFO @ Mon, 29 Jun 2020 21:56:25: 15000000 INFO @ Mon, 29 Jun 2020 21:56:27: 11000000 INFO @ Mon, 29 Jun 2020 21:56:30: 6000000 INFO @ Mon, 29 Jun 2020 21:56:31: 16000000 INFO @ Mon, 29 Jun 2020 21:56:33: 12000000 INFO @ Mon, 29 Jun 2020 21:56:35: 7000000 INFO @ Mon, 29 Jun 2020 21:56:38: 17000000 INFO @ Mon, 29 Jun 2020 21:56:38: 13000000 INFO @ Mon, 29 Jun 2020 21:56:41: 8000000 INFO @ Mon, 29 Jun 2020 21:56:44: 14000000 INFO @ Mon, 29 Jun 2020 21:56:44: 18000000 INFO @ Mon, 29 Jun 2020 21:56:47: 9000000 INFO @ Mon, 29 Jun 2020 21:56:49: 15000000 INFO @ Mon, 29 Jun 2020 21:56:50: 19000000 INFO @ Mon, 29 Jun 2020 21:56:52: 10000000 INFO @ Mon, 29 Jun 2020 21:56:55: 16000000 INFO @ Mon, 29 Jun 2020 21:56:57: 20000000 INFO @ Mon, 29 Jun 2020 21:56:58: 11000000 INFO @ Mon, 29 Jun 2020 21:57:01: 17000000 INFO @ Mon, 29 Jun 2020 21:57:03: 21000000 INFO @ Mon, 29 Jun 2020 21:57:03: 12000000 INFO @ Mon, 29 Jun 2020 21:57:06: 18000000 INFO @ Mon, 29 Jun 2020 21:57:06: #1 tag size is determined as 18 bps INFO @ Mon, 29 Jun 2020 21:57:06: #1 tag size = 18 INFO @ Mon, 29 Jun 2020 21:57:06: #1 total tags in treatment: 21581857 INFO @ Mon, 29 Jun 2020 21:57:06: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:57:06: #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 21:57:07: #1 tags after filtering in treatment: 21581857 INFO @ Mon, 29 Jun 2020 21:57:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:57:07: #1 finished! INFO @ Mon, 29 Jun 2020 21:57:07: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:57:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:57:08: #2 number of paired peaks: 33 WARNING @ Mon, 29 Jun 2020 21:57:08: Too few paired peaks (33) 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 21:57:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.05_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/SRX110797/SRX110797.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:57:09: 13000000 INFO @ Mon, 29 Jun 2020 21:57:12: 19000000 INFO @ Mon, 29 Jun 2020 21:57:14: 14000000 INFO @ Mon, 29 Jun 2020 21:57:17: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 21:57:19: 15000000 INFO @ Mon, 29 Jun 2020 21:57:22: 21000000 INFO @ Mon, 29 Jun 2020 21:57:25: 16000000 INFO @ Mon, 29 Jun 2020 21:57:25: #1 tag size is determined as 18 bps INFO @ Mon, 29 Jun 2020 21:57:25: #1 tag size = 18 INFO @ Mon, 29 Jun 2020 21:57:25: #1 total tags in treatment: 21581857 INFO @ Mon, 29 Jun 2020 21:57:25: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:57:25: #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 21:57:26: #1 tags after filtering in treatment: 21581857 INFO @ Mon, 29 Jun 2020 21:57:26: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:57:26: #1 finished! INFO @ Mon, 29 Jun 2020 21:57:26: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:57:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:57:27: #2 number of paired peaks: 33 WARNING @ Mon, 29 Jun 2020 21:57:27: Too few paired peaks (33) 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 21:57:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.10_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/SRX110797/SRX110797.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:57:30: 17000000 INFO @ Mon, 29 Jun 2020 21:57:35: 18000000 INFO @ Mon, 29 Jun 2020 21:57:40: 19000000 INFO @ Mon, 29 Jun 2020 21:57:45: 20000000 INFO @ Mon, 29 Jun 2020 21:57:50: 21000000 INFO @ Mon, 29 Jun 2020 21:57:53: #1 tag size is determined as 18 bps INFO @ Mon, 29 Jun 2020 21:57:53: #1 tag size = 18 INFO @ Mon, 29 Jun 2020 21:57:53: #1 total tags in treatment: 21581857 INFO @ Mon, 29 Jun 2020 21:57:53: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:57:53: #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 21:57:54: #1 tags after filtering in treatment: 21581857 INFO @ Mon, 29 Jun 2020 21:57:54: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:57:54: #1 finished! INFO @ Mon, 29 Jun 2020 21:57:54: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:57:54: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:57:55: #2 number of paired peaks: 33 WARNING @ Mon, 29 Jun 2020 21:57:55: Too few paired peaks (33) 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 21:57:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.20_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/SRX110797/SRX110797.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX110797/SRX110797.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。