Job ID = 14172791 SRX = SRX7434112 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: 00:02:21 10566854 reads; of these: 10566854 (100.00%) were unpaired; of these: 1919784 (18.17%) aligned 0 times 7074766 (66.95%) aligned exactly 1 time 1572304 (14.88%) aligned >1 times 81.83% overall alignment rate Time searching: 00:02:21 Overall time: 00:02:21 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] 6144730 / 8647070 = 0.7106 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 16:58:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.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 16:58:26: #1 read tag files... INFO @ Sat, 11 Dec 2021 16:58:26: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 16:58:33: 1000000 INFO @ Sat, 11 Dec 2021 16:58:40: 2000000 INFO @ Sat, 11 Dec 2021 16:58:43: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 16:58:43: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 16:58:43: #1 total tags in treatment: 2502340 INFO @ Sat, 11 Dec 2021 16:58:43: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 16:58:43: #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 16:58:43: #1 tags after filtering in treatment: 2502128 INFO @ Sat, 11 Dec 2021 16:58:43: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 16:58:43: #1 finished! INFO @ Sat, 11 Dec 2021 16:58:43: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 16:58:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 16:58:44: #2 number of paired peaks: 4965 INFO @ Sat, 11 Dec 2021 16:58:44: start model_add_line... INFO @ Sat, 11 Dec 2021 16:58:44: start X-correlation... INFO @ Sat, 11 Dec 2021 16:58:44: end of X-cor INFO @ Sat, 11 Dec 2021 16:58:44: #2 finished! INFO @ Sat, 11 Dec 2021 16:58:44: #2 predicted fragment length is 217 bps INFO @ Sat, 11 Dec 2021 16:58:44: #2 alternative fragment length(s) may be 217 bps INFO @ Sat, 11 Dec 2021 16:58:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.05_model.r INFO @ Sat, 11 Dec 2021 16:58:44: #3 Call peaks... INFO @ Sat, 11 Dec 2021 16:58:44: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 16:58:51: #3 Call peaks for each chromosome... 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 16:58:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.05_peaks.xls INFO @ Sat, 11 Dec 2021 16:58:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 16:58:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.05_summits.bed INFO @ Sat, 11 Dec 2021 16:58:54: Done! pass1 - making usageList (558 chroms): 2 millis pass2 - checking and writing primary data (3751 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 16:58:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.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 16:58:56: #1 read tag files... INFO @ Sat, 11 Dec 2021 16:58:56: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 16:59:03: 1000000 INFO @ Sat, 11 Dec 2021 16:59:10: 2000000 INFO @ Sat, 11 Dec 2021 16:59:13: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 16:59:13: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 16:59:13: #1 total tags in treatment: 2502340 INFO @ Sat, 11 Dec 2021 16:59:13: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 16:59:13: #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 16:59:14: #1 tags after filtering in treatment: 2502128 INFO @ Sat, 11 Dec 2021 16:59:14: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 16:59:14: #1 finished! INFO @ Sat, 11 Dec 2021 16:59:14: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 16:59:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 16:59:14: #2 number of paired peaks: 4965 INFO @ Sat, 11 Dec 2021 16:59:14: start model_add_line... INFO @ Sat, 11 Dec 2021 16:59:14: start X-correlation... INFO @ Sat, 11 Dec 2021 16:59:14: end of X-cor INFO @ Sat, 11 Dec 2021 16:59:14: #2 finished! INFO @ Sat, 11 Dec 2021 16:59:14: #2 predicted fragment length is 217 bps INFO @ Sat, 11 Dec 2021 16:59:14: #2 alternative fragment length(s) may be 217 bps INFO @ Sat, 11 Dec 2021 16:59:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.10_model.r INFO @ Sat, 11 Dec 2021 16:59:14: #3 Call peaks... INFO @ Sat, 11 Dec 2021 16:59:14: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 16:59:21: #3 Call peaks for each chromosome... BedGraph に変換中... INFO @ Sat, 11 Dec 2021 16:59:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.10_peaks.xls INFO @ Sat, 11 Dec 2021 16:59:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 16:59:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.10_summits.bed INFO @ Sat, 11 Dec 2021 16:59:24: Done! 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 pass1 - making usageList (284 chroms): 1 millis pass2 - checking and writing primary data (2671 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 16:59:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.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 16:59:26: #1 read tag files... INFO @ Sat, 11 Dec 2021 16:59:26: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 16:59:32: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 16:59:38: 2000000 INFO @ Sat, 11 Dec 2021 16:59:41: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 16:59:41: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 16:59:41: #1 total tags in treatment: 2502340 INFO @ Sat, 11 Dec 2021 16:59:41: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 16:59:41: #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 16:59:41: #1 tags after filtering in treatment: 2502128 INFO @ Sat, 11 Dec 2021 16:59:41: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 16:59:41: #1 finished! INFO @ Sat, 11 Dec 2021 16:59:41: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 16:59:41: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 16:59:41: #2 number of paired peaks: 4965 INFO @ Sat, 11 Dec 2021 16:59:41: start model_add_line... INFO @ Sat, 11 Dec 2021 16:59:41: start X-correlation... INFO @ Sat, 11 Dec 2021 16:59:41: end of X-cor INFO @ Sat, 11 Dec 2021 16:59:41: #2 finished! INFO @ Sat, 11 Dec 2021 16:59:41: #2 predicted fragment length is 217 bps INFO @ Sat, 11 Dec 2021 16:59:41: #2 alternative fragment length(s) may be 217 bps INFO @ Sat, 11 Dec 2021 16:59:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.20_model.r INFO @ Sat, 11 Dec 2021 16:59:41: #3 Call peaks... INFO @ Sat, 11 Dec 2021 16:59:41: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 16:59:48: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 16:59:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.20_peaks.xls INFO @ Sat, 11 Dec 2021 16:59:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 16:59:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434112/SRX7434112.20_summits.bed INFO @ Sat, 11 Dec 2021 16:59:51: Done! pass1 - making usageList (124 chroms): 1 millis pass2 - checking and writing primary data (1940 records, 4 fields): 7 millis CompletedMACS2peakCalling