Job ID = 6529158 SRX = SRX016171 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 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: 00:02:46 14001872 reads; of these: 14001872 (100.00%) were unpaired; of these: 1172272 (8.37%) aligned 0 times 10917506 (77.97%) aligned exactly 1 time 1912094 (13.66%) aligned >1 times 91.63% overall alignment rate Time searching: 00:02:46 Overall time: 00:02:46 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_rmdupse_core] 3246095 / 12829600 = 0.2530 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 01:40:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.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 01:40:17: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:40:17: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:40:24: 1000000 INFO @ Tue, 30 Jun 2020 01:40:31: 2000000 INFO @ Tue, 30 Jun 2020 01:40:37: 3000000 INFO @ Tue, 30 Jun 2020 01:40:44: 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 01:40:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.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 01:40:46: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:40:46: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:40:51: 5000000 INFO @ Tue, 30 Jun 2020 01:40:54: 1000000 INFO @ Tue, 30 Jun 2020 01:40:58: 6000000 INFO @ Tue, 30 Jun 2020 01:41:01: 2000000 INFO @ Tue, 30 Jun 2020 01:41:05: 7000000 INFO @ Tue, 30 Jun 2020 01:41:09: 3000000 INFO @ Tue, 30 Jun 2020 01:41:13: 8000000 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 01:41:16: 4000000 INFO @ Tue, 30 Jun 2020 01:41:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.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 01:41:16: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:41:16: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:41:20: 9000000 INFO @ Tue, 30 Jun 2020 01:41:23: 1000000 INFO @ Tue, 30 Jun 2020 01:41:23: 5000000 INFO @ Tue, 30 Jun 2020 01:41:24: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:41:24: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:41:24: #1 total tags in treatment: 9583505 INFO @ Tue, 30 Jun 2020 01:41:24: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:41:24: #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 01:41:25: #1 tags after filtering in treatment: 9583466 INFO @ Tue, 30 Jun 2020 01:41:25: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:41:25: #1 finished! INFO @ Tue, 30 Jun 2020 01:41:25: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:41:25: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:41:26: #2 number of paired peaks: 173 WARNING @ Tue, 30 Jun 2020 01:41:26: Fewer paired peaks (173) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 173 pairs to build model! INFO @ Tue, 30 Jun 2020 01:41:26: start model_add_line... INFO @ Tue, 30 Jun 2020 01:41:26: start X-correlation... INFO @ Tue, 30 Jun 2020 01:41:26: end of X-cor INFO @ Tue, 30 Jun 2020 01:41:26: #2 finished! INFO @ Tue, 30 Jun 2020 01:41:26: #2 predicted fragment length is 172 bps INFO @ Tue, 30 Jun 2020 01:41:26: #2 alternative fragment length(s) may be 172 bps INFO @ Tue, 30 Jun 2020 01:41:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.05_model.r INFO @ Tue, 30 Jun 2020 01:41:26: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:41:26: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:41:30: 2000000 INFO @ Tue, 30 Jun 2020 01:41:31: 6000000 INFO @ Tue, 30 Jun 2020 01:41:37: 3000000 INFO @ Tue, 30 Jun 2020 01:41:38: 7000000 INFO @ Tue, 30 Jun 2020 01:41:44: 4000000 INFO @ Tue, 30 Jun 2020 01:41:46: 8000000 INFO @ Tue, 30 Jun 2020 01:41:48: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:41:51: 5000000 INFO @ Tue, 30 Jun 2020 01:41:54: 9000000 INFO @ Tue, 30 Jun 2020 01:41:57: 6000000 INFO @ Tue, 30 Jun 2020 01:41:58: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:41:58: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:41:58: #1 total tags in treatment: 9583505 INFO @ Tue, 30 Jun 2020 01:41:58: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:41:58: #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 01:41:59: #1 tags after filtering in treatment: 9583466 INFO @ Tue, 30 Jun 2020 01:41:59: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:41:59: #1 finished! INFO @ Tue, 30 Jun 2020 01:41:59: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:41:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:41:59: #2 number of paired peaks: 173 WARNING @ Tue, 30 Jun 2020 01:41:59: Fewer paired peaks (173) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 173 pairs to build model! INFO @ Tue, 30 Jun 2020 01:41:59: start model_add_line... INFO @ Tue, 30 Jun 2020 01:42:00: start X-correlation... INFO @ Tue, 30 Jun 2020 01:42:00: end of X-cor INFO @ Tue, 30 Jun 2020 01:42:00: #2 finished! INFO @ Tue, 30 Jun 2020 01:42:00: #2 predicted fragment length is 172 bps INFO @ Tue, 30 Jun 2020 01:42:00: #2 alternative fragment length(s) may be 172 bps INFO @ Tue, 30 Jun 2020 01:42:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.10_model.r INFO @ Tue, 30 Jun 2020 01:42:00: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:42:00: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:42:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.05_peaks.xls INFO @ Tue, 30 Jun 2020 01:42:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:42:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.05_summits.bed INFO @ Tue, 30 Jun 2020 01:42:00: Done! pass1 - making usageList (203 chroms): 1 millis pass2 - checking and writing primary data (675 records, 4 fields): 49 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:42:03: 7000000 INFO @ Tue, 30 Jun 2020 01:42:09: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:42:15: 9000000 INFO @ Tue, 30 Jun 2020 01:42:19: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:42:19: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:42:19: #1 total tags in treatment: 9583505 INFO @ Tue, 30 Jun 2020 01:42:19: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:42:19: #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 01:42:19: #1 tags after filtering in treatment: 9583466 INFO @ Tue, 30 Jun 2020 01:42:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:42:19: #1 finished! INFO @ Tue, 30 Jun 2020 01:42:19: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:42:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:42:20: #2 number of paired peaks: 173 WARNING @ Tue, 30 Jun 2020 01:42:20: Fewer paired peaks (173) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 173 pairs to build model! INFO @ Tue, 30 Jun 2020 01:42:20: start model_add_line... INFO @ Tue, 30 Jun 2020 01:42:20: start X-correlation... INFO @ Tue, 30 Jun 2020 01:42:20: end of X-cor INFO @ Tue, 30 Jun 2020 01:42:20: #2 finished! INFO @ Tue, 30 Jun 2020 01:42:20: #2 predicted fragment length is 172 bps INFO @ Tue, 30 Jun 2020 01:42:20: #2 alternative fragment length(s) may be 172 bps INFO @ Tue, 30 Jun 2020 01:42:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.20_model.r INFO @ Tue, 30 Jun 2020 01:42:20: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:42:20: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:42:22: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:42:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.10_peaks.xls INFO @ Tue, 30 Jun 2020 01:42:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:42:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.10_summits.bed INFO @ Tue, 30 Jun 2020 01:42:33: Done! pass1 - making usageList (92 chroms): 1 millis pass2 - checking and writing primary data (247 records, 4 fields): 4 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 01:42:42: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:42:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.20_peaks.xls INFO @ Tue, 30 Jun 2020 01:42:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:42:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX016171/SRX016171.20_summits.bed INFO @ Tue, 30 Jun 2020 01:42:53: Done! pass1 - making usageList (66 chroms): 0 millis pass2 - checking and writing primary data (132 records, 4 fields): 6 millis CompletedMACS2peakCalling