Job ID = 14167566 SRX = SRX4712947 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: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:02:33 10383497 reads; of these: 10383497 (100.00%) were unpaired; of these: 742837 (7.15%) aligned 0 times 7976766 (76.82%) aligned exactly 1 time 1663894 (16.02%) aligned >1 times 92.85% overall alignment rate Time searching: 00:02:34 Overall time: 00:02:34 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] 6944107 / 9640660 = 0.7203 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 @ Fri, 10 Dec 2021 12:42:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.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 @ Fri, 10 Dec 2021 12:42:02: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:42:02: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:42:09: 1000000 INFO @ Fri, 10 Dec 2021 12:42:15: 2000000 INFO @ Fri, 10 Dec 2021 12:42:20: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 12:42:20: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 12:42:20: #1 total tags in treatment: 2696553 INFO @ Fri, 10 Dec 2021 12:42:20: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:42:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 12:42:20: #1 tags after filtering in treatment: 2696487 INFO @ Fri, 10 Dec 2021 12:42:20: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:42:20: #1 finished! INFO @ Fri, 10 Dec 2021 12:42:20: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:42:20: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:42:21: #2 number of paired peaks: 3374 INFO @ Fri, 10 Dec 2021 12:42:21: start model_add_line... INFO @ Fri, 10 Dec 2021 12:42:21: start X-correlation... INFO @ Fri, 10 Dec 2021 12:42:21: end of X-cor INFO @ Fri, 10 Dec 2021 12:42:21: #2 finished! INFO @ Fri, 10 Dec 2021 12:42:21: #2 predicted fragment length is 145 bps INFO @ Fri, 10 Dec 2021 12:42:21: #2 alternative fragment length(s) may be 145 bps INFO @ Fri, 10 Dec 2021 12:42:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.05_model.r INFO @ Fri, 10 Dec 2021 12:42:21: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:42:21: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:42:28: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:42:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.05_peaks.xls INFO @ Fri, 10 Dec 2021 12:42:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.05_peaks.narrowPeak 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 @ Fri, 10 Dec 2021 12:42:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.05_summits.bed INFO @ Fri, 10 Dec 2021 12:42:31: Done! pass1 - making usageList (511 chroms): 1 millis pass2 - checking and writing primary data (5891 records, 4 fields): 69 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:42:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.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 @ Fri, 10 Dec 2021 12:42:32: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:42:32: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:42:39: 1000000 INFO @ Fri, 10 Dec 2021 12:42:46: 2000000 INFO @ Fri, 10 Dec 2021 12:42:51: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 12:42:51: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 12:42:51: #1 total tags in treatment: 2696553 INFO @ Fri, 10 Dec 2021 12:42:51: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:42:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 12:42:52: #1 tags after filtering in treatment: 2696487 INFO @ Fri, 10 Dec 2021 12:42:52: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:42:52: #1 finished! INFO @ Fri, 10 Dec 2021 12:42:52: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:42:52: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:42:52: #2 number of paired peaks: 3374 INFO @ Fri, 10 Dec 2021 12:42:52: start model_add_line... INFO @ Fri, 10 Dec 2021 12:42:52: start X-correlation... INFO @ Fri, 10 Dec 2021 12:42:52: end of X-cor INFO @ Fri, 10 Dec 2021 12:42:52: #2 finished! INFO @ Fri, 10 Dec 2021 12:42:52: #2 predicted fragment length is 145 bps INFO @ Fri, 10 Dec 2021 12:42:52: #2 alternative fragment length(s) may be 145 bps INFO @ Fri, 10 Dec 2021 12:42:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.10_model.r INFO @ Fri, 10 Dec 2021 12:42:52: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:42:52: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:42:59: #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 @ Fri, 10 Dec 2021 12:43:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.10_peaks.xls INFO @ Fri, 10 Dec 2021 12:43:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:43:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.10_summits.bed INFO @ Fri, 10 Dec 2021 12:43:02: Done! INFO @ Fri, 10 Dec 2021 12:43:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.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 @ Fri, 10 Dec 2021 12:43:02: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:43:02: #1 read treatment tags... pass1 - making usageList (254 chroms): 1 millis pass2 - checking and writing primary data (3672 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:43:09: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 12:43:15: 2000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 12:43:20: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 12:43:20: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 12:43:20: #1 total tags in treatment: 2696553 INFO @ Fri, 10 Dec 2021 12:43:20: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:43:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 12:43:20: #1 tags after filtering in treatment: 2696487 INFO @ Fri, 10 Dec 2021 12:43:20: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:43:20: #1 finished! INFO @ Fri, 10 Dec 2021 12:43:20: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:43:20: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:43:21: #2 number of paired peaks: 3374 INFO @ Fri, 10 Dec 2021 12:43:21: start model_add_line... INFO @ Fri, 10 Dec 2021 12:43:21: start X-correlation... INFO @ Fri, 10 Dec 2021 12:43:21: end of X-cor INFO @ Fri, 10 Dec 2021 12:43:21: #2 finished! INFO @ Fri, 10 Dec 2021 12:43:21: #2 predicted fragment length is 145 bps INFO @ Fri, 10 Dec 2021 12:43:21: #2 alternative fragment length(s) may be 145 bps INFO @ Fri, 10 Dec 2021 12:43:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.20_model.r INFO @ Fri, 10 Dec 2021 12:43:21: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:43:21: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:43:28: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:43:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.20_peaks.xls INFO @ Fri, 10 Dec 2021 12:43:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:43:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712947/SRX4712947.20_summits.bed INFO @ Fri, 10 Dec 2021 12:43:31: Done! pass1 - making usageList (120 chroms): 1 millis pass2 - checking and writing primary data (2101 records, 4 fields): 6 millis CompletedMACS2peakCalling