Job ID = 14170817 SRX = SRX8784752 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: 00:02:39 6541325 reads; of these: 6541325 (100.00%) were unpaired; of these: 246604 (3.77%) aligned 0 times 5642521 (86.26%) aligned exactly 1 time 652200 (9.97%) aligned >1 times 96.23% overall alignment rate Time searching: 00:02:39 Overall time: 00:02:39 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] 301975 / 6294721 = 0.0480 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 08:54:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.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 @ Sat, 11 Dec 2021 08:54:39: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:54:39: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:54:46: 1000000 INFO @ Sat, 11 Dec 2021 08:54:53: 2000000 INFO @ Sat, 11 Dec 2021 08:55:00: 3000000 INFO @ Sat, 11 Dec 2021 08:55:07: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 08:55:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.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 @ Sat, 11 Dec 2021 08:55:09: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:55:09: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:55:15: 5000000 INFO @ Sat, 11 Dec 2021 08:55:17: 1000000 INFO @ Sat, 11 Dec 2021 08:55:23: #1 tag size is determined as 100 bps INFO @ Sat, 11 Dec 2021 08:55:23: #1 tag size = 100 INFO @ Sat, 11 Dec 2021 08:55:23: #1 total tags in treatment: 5992746 INFO @ Sat, 11 Dec 2021 08:55:23: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:55:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 08:55:23: #1 tags after filtering in treatment: 5992419 INFO @ Sat, 11 Dec 2021 08:55:23: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:55:23: #1 finished! INFO @ Sat, 11 Dec 2021 08:55:23: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:55:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:55:23: #2 number of paired peaks: 268 WARNING @ Sat, 11 Dec 2021 08:55:23: Fewer paired peaks (268) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 268 pairs to build model! INFO @ Sat, 11 Dec 2021 08:55:23: start model_add_line... INFO @ Sat, 11 Dec 2021 08:55:23: start X-correlation... INFO @ Sat, 11 Dec 2021 08:55:23: end of X-cor INFO @ Sat, 11 Dec 2021 08:55:23: #2 finished! INFO @ Sat, 11 Dec 2021 08:55:23: #2 predicted fragment length is 221 bps INFO @ Sat, 11 Dec 2021 08:55:23: #2 alternative fragment length(s) may be 221 bps INFO @ Sat, 11 Dec 2021 08:55:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.05_model.r INFO @ Sat, 11 Dec 2021 08:55:23: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:55:23: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:55:25: 2000000 INFO @ Sat, 11 Dec 2021 08:55:32: 3000000 INFO @ Sat, 11 Dec 2021 08:55:37: #3 Call peaks for each chromosome... BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 08:55:39: 4000000 INFO @ Sat, 11 Dec 2021 08:55:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.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 @ Sat, 11 Dec 2021 08:55:39: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:55:39: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:55:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.05_peaks.xls INFO @ Sat, 11 Dec 2021 08:55:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:55:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.05_summits.bed INFO @ Sat, 11 Dec 2021 08:55:44: Done! pass1 - making usageList (120 chroms): 1 millis pass2 - checking and writing primary data (3531 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:55:47: 5000000 INFO @ Sat, 11 Dec 2021 08:55:47: 1000000 INFO @ Sat, 11 Dec 2021 08:55:55: #1 tag size is determined as 100 bps INFO @ Sat, 11 Dec 2021 08:55:55: #1 tag size = 100 INFO @ Sat, 11 Dec 2021 08:55:55: #1 total tags in treatment: 5992746 INFO @ Sat, 11 Dec 2021 08:55:55: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:55:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 08:55:55: 2000000 INFO @ Sat, 11 Dec 2021 08:55:55: #1 tags after filtering in treatment: 5992419 INFO @ Sat, 11 Dec 2021 08:55:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:55:55: #1 finished! INFO @ Sat, 11 Dec 2021 08:55:55: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:55:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:55:56: #2 number of paired peaks: 268 WARNING @ Sat, 11 Dec 2021 08:55:56: Fewer paired peaks (268) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 268 pairs to build model! INFO @ Sat, 11 Dec 2021 08:55:56: start model_add_line... INFO @ Sat, 11 Dec 2021 08:55:56: start X-correlation... INFO @ Sat, 11 Dec 2021 08:55:56: end of X-cor INFO @ Sat, 11 Dec 2021 08:55:56: #2 finished! INFO @ Sat, 11 Dec 2021 08:55:56: #2 predicted fragment length is 221 bps INFO @ Sat, 11 Dec 2021 08:55:56: #2 alternative fragment length(s) may be 221 bps INFO @ Sat, 11 Dec 2021 08:55:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.10_model.r INFO @ Sat, 11 Dec 2021 08:55:56: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:55:56: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:56:02: 3000000 INFO @ Sat, 11 Dec 2021 08:56:09: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:56:09: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 08:56:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.10_peaks.xls INFO @ Sat, 11 Dec 2021 08:56:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:56:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.10_summits.bed INFO @ Sat, 11 Dec 2021 08:56:15: Done! pass1 - making usageList (73 chroms): 1 millis pass2 - checking and writing primary data (652 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:56:16: 5000000 INFO @ Sat, 11 Dec 2021 08:56:23: #1 tag size is determined as 100 bps INFO @ Sat, 11 Dec 2021 08:56:23: #1 tag size = 100 INFO @ Sat, 11 Dec 2021 08:56:23: #1 total tags in treatment: 5992746 INFO @ Sat, 11 Dec 2021 08:56:23: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:56:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 08:56:23: #1 tags after filtering in treatment: 5992419 INFO @ Sat, 11 Dec 2021 08:56:23: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:56:23: #1 finished! INFO @ Sat, 11 Dec 2021 08:56:23: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:56:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:56:24: #2 number of paired peaks: 268 WARNING @ Sat, 11 Dec 2021 08:56:24: Fewer paired peaks (268) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 268 pairs to build model! INFO @ Sat, 11 Dec 2021 08:56:24: start model_add_line... INFO @ Sat, 11 Dec 2021 08:56:24: start X-correlation... INFO @ Sat, 11 Dec 2021 08:56:24: end of X-cor INFO @ Sat, 11 Dec 2021 08:56:24: #2 finished! INFO @ Sat, 11 Dec 2021 08:56:24: #2 predicted fragment length is 221 bps INFO @ Sat, 11 Dec 2021 08:56:24: #2 alternative fragment length(s) may be 221 bps INFO @ Sat, 11 Dec 2021 08:56:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.20_model.r INFO @ Sat, 11 Dec 2021 08:56:24: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:56:24: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 08:56:37: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:56:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.20_peaks.xls INFO @ Sat, 11 Dec 2021 08:56:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:56:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8784752/SRX8784752.20_summits.bed INFO @ Sat, 11 Dec 2021 08:56:44: Done! pass1 - making usageList (41 chroms): 1 millis pass2 - checking and writing primary data (99 records, 4 fields): 2 millis CompletedMACS2peakCalling