Job ID = 14166953 SRX = SRX7541117 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 16626442 spots for SRR10871153/SRR10871153.sra Written 16626442 spots for SRR10871153/SRR10871153.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167190 ("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: 00:03:18 16626442 reads; of these: 16626442 (100.00%) were unpaired; of these: 8725705 (52.48%) aligned 0 times 6416151 (38.59%) aligned exactly 1 time 1484586 (8.93%) aligned >1 times 47.52% overall alignment rate Time searching: 00:03:18 Overall time: 00:03:18 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] 1271244 / 7900737 = 0.1609 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 08:11:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.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 08:11:09: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:11:09: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:11:16: 1000000 INFO @ Fri, 10 Dec 2021 08:11:23: 2000000 INFO @ Fri, 10 Dec 2021 08:11:31: 3000000 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 08:11:38: 4000000 INFO @ Fri, 10 Dec 2021 08:11:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.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 08:11:38: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:11:38: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:11:46: 5000000 INFO @ Fri, 10 Dec 2021 08:11:46: 1000000 INFO @ Fri, 10 Dec 2021 08:11:54: 6000000 INFO @ Fri, 10 Dec 2021 08:11:54: 2000000 INFO @ Fri, 10 Dec 2021 08:11:58: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 08:11:58: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 08:11:58: #1 total tags in treatment: 6629493 INFO @ Fri, 10 Dec 2021 08:11:58: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:11:58: #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 08:11:59: #1 tags after filtering in treatment: 6629493 INFO @ Fri, 10 Dec 2021 08:11:59: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:11:59: #1 finished! INFO @ Fri, 10 Dec 2021 08:11:59: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:11:59: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:11:59: #2 number of paired peaks: 4003 INFO @ Fri, 10 Dec 2021 08:11:59: start model_add_line... INFO @ Fri, 10 Dec 2021 08:12:00: start X-correlation... INFO @ Fri, 10 Dec 2021 08:12:00: end of X-cor INFO @ Fri, 10 Dec 2021 08:12:00: #2 finished! INFO @ Fri, 10 Dec 2021 08:12:00: #2 predicted fragment length is 249 bps INFO @ Fri, 10 Dec 2021 08:12:00: #2 alternative fragment length(s) may be 249 bps INFO @ Fri, 10 Dec 2021 08:12:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.05_model.r INFO @ Fri, 10 Dec 2021 08:12:00: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:12:00: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 08:12:01: 3000000 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 08:12:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.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 08:12:08: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:12:08: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:12:09: 4000000 INFO @ Fri, 10 Dec 2021 08:12:16: 5000000 INFO @ Fri, 10 Dec 2021 08:12:18: 1000000 INFO @ Fri, 10 Dec 2021 08:12:21: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:12:24: 6000000 INFO @ Fri, 10 Dec 2021 08:12:28: 2000000 INFO @ Fri, 10 Dec 2021 08:12:29: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 08:12:29: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 08:12:29: #1 total tags in treatment: 6629493 INFO @ Fri, 10 Dec 2021 08:12:29: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:12:29: #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 08:12:29: #1 tags after filtering in treatment: 6629493 INFO @ Fri, 10 Dec 2021 08:12:29: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:12:29: #1 finished! INFO @ Fri, 10 Dec 2021 08:12:29: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:12:29: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:12:30: #2 number of paired peaks: 4003 INFO @ Fri, 10 Dec 2021 08:12:30: start model_add_line... INFO @ Fri, 10 Dec 2021 08:12:30: start X-correlation... INFO @ Fri, 10 Dec 2021 08:12:30: end of X-cor INFO @ Fri, 10 Dec 2021 08:12:30: #2 finished! INFO @ Fri, 10 Dec 2021 08:12:30: #2 predicted fragment length is 249 bps INFO @ Fri, 10 Dec 2021 08:12:30: #2 alternative fragment length(s) may be 249 bps INFO @ Fri, 10 Dec 2021 08:12:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.10_model.r INFO @ Fri, 10 Dec 2021 08:12:30: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:12:30: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 08:12:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.05_peaks.xls INFO @ Fri, 10 Dec 2021 08:12:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:12:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.05_summits.bed INFO @ Fri, 10 Dec 2021 08:12:33: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (6416 records, 4 fields): 28 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 08:12:38: 3000000 INFO @ Fri, 10 Dec 2021 08:12:47: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 08:12:51: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:12:57: 5000000 INFO @ Fri, 10 Dec 2021 08:13:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.10_peaks.xls INFO @ Fri, 10 Dec 2021 08:13:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:13:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.10_summits.bed INFO @ Fri, 10 Dec 2021 08:13:02: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (5155 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 08:13:06: 6000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 08:13:12: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 08:13:12: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 08:13:12: #1 total tags in treatment: 6629493 INFO @ Fri, 10 Dec 2021 08:13:12: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:13:12: #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 08:13:12: #1 tags after filtering in treatment: 6629493 INFO @ Fri, 10 Dec 2021 08:13:12: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:13:12: #1 finished! INFO @ Fri, 10 Dec 2021 08:13:12: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:13:12: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:13:13: #2 number of paired peaks: 4003 INFO @ Fri, 10 Dec 2021 08:13:13: start model_add_line... INFO @ Fri, 10 Dec 2021 08:13:13: start X-correlation... INFO @ Fri, 10 Dec 2021 08:13:13: end of X-cor INFO @ Fri, 10 Dec 2021 08:13:13: #2 finished! INFO @ Fri, 10 Dec 2021 08:13:13: #2 predicted fragment length is 249 bps INFO @ Fri, 10 Dec 2021 08:13:13: #2 alternative fragment length(s) may be 249 bps INFO @ Fri, 10 Dec 2021 08:13:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.20_model.r INFO @ Fri, 10 Dec 2021 08:13:13: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:13:13: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 08:13:35: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:13:45: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.20_peaks.xls INFO @ Fri, 10 Dec 2021 08:13:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:13:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7541117/SRX7541117.20_summits.bed INFO @ Fri, 10 Dec 2021 08:13:45: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (3080 records, 4 fields): 6 millis CompletedMACS2peakCalling