Job ID = 14172905 SRX = SRX7434135 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: 00:02:03 8468554 reads; of these: 8468554 (100.00%) were unpaired; of these: 876066 (10.34%) aligned 0 times 6051742 (71.46%) aligned exactly 1 time 1540746 (18.19%) aligned >1 times 89.66% overall alignment rate Time searching: 00:02:03 Overall time: 00:02:03 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] 4511826 / 7592488 = 0.5942 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 17:23:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.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 17:23:28: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:23:28: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:23:35: 1000000 INFO @ Sat, 11 Dec 2021 17:23:42: 2000000 INFO @ Sat, 11 Dec 2021 17:23:49: 3000000 INFO @ Sat, 11 Dec 2021 17:23:50: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:23:50: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:23:50: #1 total tags in treatment: 3080662 INFO @ Sat, 11 Dec 2021 17:23:50: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:23:50: #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 17:23:50: #1 tags after filtering in treatment: 3080501 INFO @ Sat, 11 Dec 2021 17:23:50: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:23:50: #1 finished! INFO @ Sat, 11 Dec 2021 17:23:50: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:23:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:23:51: #2 number of paired peaks: 4804 INFO @ Sat, 11 Dec 2021 17:23:51: start model_add_line... INFO @ Sat, 11 Dec 2021 17:23:51: start X-correlation... INFO @ Sat, 11 Dec 2021 17:23:51: end of X-cor INFO @ Sat, 11 Dec 2021 17:23:51: #2 finished! INFO @ Sat, 11 Dec 2021 17:23:51: #2 predicted fragment length is 229 bps INFO @ Sat, 11 Dec 2021 17:23:51: #2 alternative fragment length(s) may be 229 bps INFO @ Sat, 11 Dec 2021 17:23:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.05_model.r INFO @ Sat, 11 Dec 2021 17:23:51: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:23:51: #3 Pre-compute pvalue-qvalue table... 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 17:23:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.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 17:23:58: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:23:58: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:23:59: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:24:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.05_peaks.xls INFO @ Sat, 11 Dec 2021 17:24:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:24:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.05_summits.bed INFO @ Sat, 11 Dec 2021 17:24:03: Done! pass1 - making usageList (553 chroms): 1 millis pass2 - checking and writing primary data (3898 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 17:24:04: 1000000 INFO @ Sat, 11 Dec 2021 17:24:10: 2000000 INFO @ Sat, 11 Dec 2021 17:24:16: 3000000 INFO @ Sat, 11 Dec 2021 17:24:16: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:24:16: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:24:16: #1 total tags in treatment: 3080662 INFO @ Sat, 11 Dec 2021 17:24:16: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:24:16: #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 17:24:16: #1 tags after filtering in treatment: 3080501 INFO @ Sat, 11 Dec 2021 17:24:16: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:24:16: #1 finished! INFO @ Sat, 11 Dec 2021 17:24:16: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:24:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:24:17: #2 number of paired peaks: 4804 INFO @ Sat, 11 Dec 2021 17:24:17: start model_add_line... INFO @ Sat, 11 Dec 2021 17:24:17: start X-correlation... INFO @ Sat, 11 Dec 2021 17:24:17: end of X-cor INFO @ Sat, 11 Dec 2021 17:24:17: #2 finished! INFO @ Sat, 11 Dec 2021 17:24:17: #2 predicted fragment length is 229 bps INFO @ Sat, 11 Dec 2021 17:24:17: #2 alternative fragment length(s) may be 229 bps INFO @ Sat, 11 Dec 2021 17:24:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.10_model.r INFO @ Sat, 11 Dec 2021 17:24:17: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:24:17: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 17:24:25: #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 17:24:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.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 17:24:28: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:24:28: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:24:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.10_peaks.xls INFO @ Sat, 11 Dec 2021 17:24:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:24:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.10_summits.bed INFO @ Sat, 11 Dec 2021 17:24:29: Done! pass1 - making usageList (382 chroms): 1 millis pass2 - checking and writing primary data (2966 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 17:24:34: 1000000 INFO @ Sat, 11 Dec 2021 17:24:39: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 17:24:46: 3000000 INFO @ Sat, 11 Dec 2021 17:24:46: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:24:46: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:24:46: #1 total tags in treatment: 3080662 INFO @ Sat, 11 Dec 2021 17:24:46: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:24:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 17:24:47: #1 tags after filtering in treatment: 3080501 INFO @ Sat, 11 Dec 2021 17:24:47: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:24:47: #1 finished! INFO @ Sat, 11 Dec 2021 17:24:47: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:24:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:24:47: #2 number of paired peaks: 4804 INFO @ Sat, 11 Dec 2021 17:24:47: start model_add_line... INFO @ Sat, 11 Dec 2021 17:24:47: start X-correlation... INFO @ Sat, 11 Dec 2021 17:24:47: end of X-cor INFO @ Sat, 11 Dec 2021 17:24:47: #2 finished! INFO @ Sat, 11 Dec 2021 17:24:47: #2 predicted fragment length is 229 bps INFO @ Sat, 11 Dec 2021 17:24:47: #2 alternative fragment length(s) may be 229 bps INFO @ Sat, 11 Dec 2021 17:24:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.20_model.r INFO @ Sat, 11 Dec 2021 17:24:47: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:24:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 17:24:55: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:24:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.20_peaks.xls INFO @ Sat, 11 Dec 2021 17:24:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:24:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434135/SRX7434135.20_summits.bed INFO @ Sat, 11 Dec 2021 17:24:59: Done! pass1 - making usageList (171 chroms): 1 millis pass2 - checking and writing primary data (2272 records, 4 fields): 8 millis CompletedMACS2peakCalling