Job ID = 14171280 SRX = SRX9986132 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 11123644 spots for SRR13591551/SRR13591551.sra Written 11123644 spots for SRR13591551/SRR13591551.sra fastq に変換しました。 bowtie でマッピング中... Your job 14171720 ("srTdm6") has been submitted 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 11123644 reads; of these: 11123644 (100.00%) were unpaired; of these: 1052681 (9.46%) aligned 0 times 8795492 (79.07%) aligned exactly 1 time 1275471 (11.47%) aligned >1 times 90.54% 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: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 2564959 / 10070963 = 0.2547 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 10:56:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.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 10:56:35: #1 read tag files... INFO @ Sat, 11 Dec 2021 10:56:35: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 10:56:41: 1000000 INFO @ Sat, 11 Dec 2021 10:56:48: 2000000 INFO @ Sat, 11 Dec 2021 10:56:55: 3000000 INFO @ Sat, 11 Dec 2021 10:57:02: 4000000 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 10:57:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.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 10:57:04: #1 read tag files... INFO @ Sat, 11 Dec 2021 10:57:04: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 10:57:09: 5000000 INFO @ Sat, 11 Dec 2021 10:57:11: 1000000 INFO @ Sat, 11 Dec 2021 10:57:15: 6000000 INFO @ Sat, 11 Dec 2021 10:57:19: 2000000 INFO @ Sat, 11 Dec 2021 10:57:22: 7000000 INFO @ Sat, 11 Dec 2021 10:57:25: 3000000 INFO @ Sat, 11 Dec 2021 10:57:26: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 10:57:26: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 10:57:26: #1 total tags in treatment: 7506004 INFO @ Sat, 11 Dec 2021 10:57:26: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 10:57:26: #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 10:57:26: #1 tags after filtering in treatment: 7506004 INFO @ Sat, 11 Dec 2021 10:57:26: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 10:57:26: #1 finished! INFO @ Sat, 11 Dec 2021 10:57:26: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 10:57:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 10:57:27: #2 number of paired peaks: 2221 INFO @ Sat, 11 Dec 2021 10:57:27: start model_add_line... INFO @ Sat, 11 Dec 2021 10:57:27: start X-correlation... INFO @ Sat, 11 Dec 2021 10:57:27: end of X-cor INFO @ Sat, 11 Dec 2021 10:57:27: #2 finished! INFO @ Sat, 11 Dec 2021 10:57:27: #2 predicted fragment length is 151 bps INFO @ Sat, 11 Dec 2021 10:57:27: #2 alternative fragment length(s) may be 2,151 bps INFO @ Sat, 11 Dec 2021 10:57:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.05_model.r INFO @ Sat, 11 Dec 2021 10:57:27: #3 Call peaks... INFO @ Sat, 11 Dec 2021 10:57:27: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 10:57:32: 4000000 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 10:57:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.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 10:57:34: #1 read tag files... INFO @ Sat, 11 Dec 2021 10:57:34: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 10:57:38: 5000000 INFO @ Sat, 11 Dec 2021 10:57:42: 1000000 INFO @ Sat, 11 Dec 2021 10:57:43: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 10:57:44: 6000000 INFO @ Sat, 11 Dec 2021 10:57:49: 2000000 INFO @ Sat, 11 Dec 2021 10:57:50: 7000000 INFO @ Sat, 11 Dec 2021 10:57:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.05_peaks.xls INFO @ Sat, 11 Dec 2021 10:57:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 10:57:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.05_summits.bed INFO @ Sat, 11 Dec 2021 10:57:51: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (3326 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 10:57:54: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 10:57:54: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 10:57:54: #1 total tags in treatment: 7506004 INFO @ Sat, 11 Dec 2021 10:57:54: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 10:57:54: #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 10:57:54: #1 tags after filtering in treatment: 7506004 INFO @ Sat, 11 Dec 2021 10:57:54: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 10:57:54: #1 finished! INFO @ Sat, 11 Dec 2021 10:57:54: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 10:57:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 10:57:54: #2 number of paired peaks: 2221 INFO @ Sat, 11 Dec 2021 10:57:54: start model_add_line... INFO @ Sat, 11 Dec 2021 10:57:54: start X-correlation... INFO @ Sat, 11 Dec 2021 10:57:54: end of X-cor INFO @ Sat, 11 Dec 2021 10:57:54: #2 finished! INFO @ Sat, 11 Dec 2021 10:57:54: #2 predicted fragment length is 151 bps INFO @ Sat, 11 Dec 2021 10:57:54: #2 alternative fragment length(s) may be 2,151 bps INFO @ Sat, 11 Dec 2021 10:57:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.10_model.r INFO @ Sat, 11 Dec 2021 10:57:55: #3 Call peaks... INFO @ Sat, 11 Dec 2021 10:57:55: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 10:57:56: 3000000 INFO @ Sat, 11 Dec 2021 10:58:03: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 10:58:09: 5000000 INFO @ Sat, 11 Dec 2021 10:58:10: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 10:58:16: 6000000 INFO @ Sat, 11 Dec 2021 10:58:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.10_peaks.xls INFO @ Sat, 11 Dec 2021 10:58:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 10:58:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.10_summits.bed INFO @ Sat, 11 Dec 2021 10:58:18: Done! pass1 - making usageList (13 chroms): 2 millis pass2 - checking and writing primary data (844 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 10:58:22: 7000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 10:58:25: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 10:58:25: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 10:58:25: #1 total tags in treatment: 7506004 INFO @ Sat, 11 Dec 2021 10:58:25: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 10:58:25: #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 10:58:25: #1 tags after filtering in treatment: 7506004 INFO @ Sat, 11 Dec 2021 10:58:25: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 10:58:25: #1 finished! INFO @ Sat, 11 Dec 2021 10:58:25: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 10:58:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 10:58:26: #2 number of paired peaks: 2221 INFO @ Sat, 11 Dec 2021 10:58:26: start model_add_line... INFO @ Sat, 11 Dec 2021 10:58:26: start X-correlation... INFO @ Sat, 11 Dec 2021 10:58:26: end of X-cor INFO @ Sat, 11 Dec 2021 10:58:26: #2 finished! INFO @ Sat, 11 Dec 2021 10:58:26: #2 predicted fragment length is 151 bps INFO @ Sat, 11 Dec 2021 10:58:26: #2 alternative fragment length(s) may be 2,151 bps INFO @ Sat, 11 Dec 2021 10:58:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.20_model.r INFO @ Sat, 11 Dec 2021 10:58:26: #3 Call peaks... INFO @ Sat, 11 Dec 2021 10:58:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 10:58:42: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 10:58:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.20_peaks.xls INFO @ Sat, 11 Dec 2021 10:58:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 10:58:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9986132/SRX9986132.20_summits.bed INFO @ Sat, 11 Dec 2021 10:58:49: Done! pass1 - making usageList (11 chroms): 0 millis pass2 - checking and writing primary data (177 records, 4 fields): 2 millis CompletedMACS2peakCalling