Job ID = 16438601 SRX = SRX14748151 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 4307458 spots for SRR18645012/SRR18645012.sra Written 4307458 spots for SRR18645012/SRR18645012.sra fastq に変換しました。 bowtie でマッピング中... Your job 16438700 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:01:32 4307458 reads; of these: 4307458 (100.00%) were unpaired; of these: 247888 (5.75%) aligned 0 times 2786407 (64.69%) aligned exactly 1 time 1273163 (29.56%) aligned >1 times 94.25% overall alignment rate Time searching: 00:01:32 Overall time: 00:01:32 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_rmdupse_core] 869225 / 4059570 = 0.2141 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 14:04:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.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, 02 Aug 2022 14:04:20: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:04:20: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:04:27: 1000000 INFO @ Tue, 02 Aug 2022 14:04:34: 2000000 INFO @ Tue, 02 Aug 2022 14:04:42: 3000000 INFO @ Tue, 02 Aug 2022 14:04:43: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 14:04:43: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 14:04:43: #1 total tags in treatment: 3190345 INFO @ Tue, 02 Aug 2022 14:04:43: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:04:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 14:04:43: #1 tags after filtering in treatment: 3190345 INFO @ Tue, 02 Aug 2022 14:04:43: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:04:43: #1 finished! INFO @ Tue, 02 Aug 2022 14:04:43: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:04:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:04:43: #2 number of paired peaks: 2495 INFO @ Tue, 02 Aug 2022 14:04:43: start model_add_line... INFO @ Tue, 02 Aug 2022 14:04:43: start X-correlation... INFO @ Tue, 02 Aug 2022 14:04:43: end of X-cor INFO @ Tue, 02 Aug 2022 14:04:43: #2 finished! INFO @ Tue, 02 Aug 2022 14:04:43: #2 predicted fragment length is 186 bps INFO @ Tue, 02 Aug 2022 14:04:43: #2 alternative fragment length(s) may be 186 bps INFO @ Tue, 02 Aug 2022 14:04:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.05_model.r INFO @ Tue, 02 Aug 2022 14:04:43: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:04:43: #3 Pre-compute pvalue-qvalue table... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 14:04:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.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, 02 Aug 2022 14:04:50: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:04:50: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:04:51: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:04:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.05_peaks.xls INFO @ Tue, 02 Aug 2022 14:04:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:04:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.05_summits.bed INFO @ Tue, 02 Aug 2022 14:04:55: Done! INFO @ Tue, 02 Aug 2022 14:04:55: 1000000 pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (3521 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 14:05:01: 2000000 INFO @ Tue, 02 Aug 2022 14:05:07: 3000000 INFO @ Tue, 02 Aug 2022 14:05:08: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 14:05:08: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 14:05:08: #1 total tags in treatment: 3190345 INFO @ Tue, 02 Aug 2022 14:05:08: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:05:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 14:05:08: #1 tags after filtering in treatment: 3190345 INFO @ Tue, 02 Aug 2022 14:05:08: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:05:08: #1 finished! INFO @ Tue, 02 Aug 2022 14:05:08: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:05:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:05:08: #2 number of paired peaks: 2495 INFO @ Tue, 02 Aug 2022 14:05:08: start model_add_line... INFO @ Tue, 02 Aug 2022 14:05:08: start X-correlation... INFO @ Tue, 02 Aug 2022 14:05:08: end of X-cor INFO @ Tue, 02 Aug 2022 14:05:08: #2 finished! INFO @ Tue, 02 Aug 2022 14:05:08: #2 predicted fragment length is 186 bps INFO @ Tue, 02 Aug 2022 14:05:08: #2 alternative fragment length(s) may be 186 bps INFO @ Tue, 02 Aug 2022 14:05:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.10_model.r INFO @ Tue, 02 Aug 2022 14:05:08: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:05:08: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:05:16: #3 Call peaks for each chromosome... BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 14:05:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.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, 02 Aug 2022 14:05:20: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:05:20: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:05:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.10_peaks.xls INFO @ Tue, 02 Aug 2022 14:05:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:05:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.10_summits.bed INFO @ Tue, 02 Aug 2022 14:05:20: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (2416 records, 4 fields): 88 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 14:05:27: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 14:05:34: 2000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 14:05:41: 3000000 INFO @ Tue, 02 Aug 2022 14:05:42: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 14:05:42: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 14:05:42: #1 total tags in treatment: 3190345 INFO @ Tue, 02 Aug 2022 14:05:42: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:05:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 14:05:42: #1 tags after filtering in treatment: 3190345 INFO @ Tue, 02 Aug 2022 14:05:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:05:42: #1 finished! INFO @ Tue, 02 Aug 2022 14:05:42: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:05:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:05:42: #2 number of paired peaks: 2495 INFO @ Tue, 02 Aug 2022 14:05:42: start model_add_line... INFO @ Tue, 02 Aug 2022 14:05:42: start X-correlation... INFO @ Tue, 02 Aug 2022 14:05:42: end of X-cor INFO @ Tue, 02 Aug 2022 14:05:42: #2 finished! INFO @ Tue, 02 Aug 2022 14:05:42: #2 predicted fragment length is 186 bps INFO @ Tue, 02 Aug 2022 14:05:42: #2 alternative fragment length(s) may be 186 bps INFO @ Tue, 02 Aug 2022 14:05:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.20_model.r INFO @ Tue, 02 Aug 2022 14:05:42: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:05:42: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:05:51: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:05:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.20_peaks.xls INFO @ Tue, 02 Aug 2022 14:05:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:05:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX14748151/SRX14748151.20_summits.bed INFO @ Tue, 02 Aug 2022 14:05:54: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (1613 records, 4 fields): 357 millis CompletedMACS2peakCalling