Job ID = 6626745 SRX = SRX7262540 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: 00:05:39 35302305 reads; of these: 35302305 (100.00%) were unpaired; of these: 30089084 (85.23%) aligned 0 times 4328771 (12.26%) aligned exactly 1 time 884450 (2.51%) aligned >1 times 14.77% overall alignment rate Time searching: 00:05:39 Overall time: 00:05:39 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] 924605 / 5213221 = 0.1774 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:42:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.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, 14 Jul 2020 08:42:06: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:42:06: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:42:13: 1000000 INFO @ Tue, 14 Jul 2020 08:42:19: 2000000 INFO @ Tue, 14 Jul 2020 08:42:26: 3000000 INFO @ Tue, 14 Jul 2020 08:42:32: 4000000 INFO @ Tue, 14 Jul 2020 08:42:34: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:42:34: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:42:34: #1 total tags in treatment: 4288616 INFO @ Tue, 14 Jul 2020 08:42:34: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:42:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:42:35: #1 tags after filtering in treatment: 4287980 INFO @ Tue, 14 Jul 2020 08:42:35: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:42:35: #1 finished! INFO @ Tue, 14 Jul 2020 08:42:35: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:42:35: #2 looking for paired plus/minus strand peaks... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:42:35: #2 number of paired peaks: 9511 INFO @ Tue, 14 Jul 2020 08:42:35: start model_add_line... INFO @ Tue, 14 Jul 2020 08:42:35: start X-correlation... INFO @ Tue, 14 Jul 2020 08:42:35: end of X-cor INFO @ Tue, 14 Jul 2020 08:42:35: #2 finished! INFO @ Tue, 14 Jul 2020 08:42:35: #2 predicted fragment length is 168 bps INFO @ Tue, 14 Jul 2020 08:42:35: #2 alternative fragment length(s) may be 168 bps INFO @ Tue, 14 Jul 2020 08:42:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.05_model.r INFO @ Tue, 14 Jul 2020 08:42:35: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:42:35: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:42:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.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, 14 Jul 2020 08:42:36: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:42:36: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:42:42: 1000000 INFO @ Tue, 14 Jul 2020 08:42:47: 2000000 INFO @ Tue, 14 Jul 2020 08:42:48: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:42:53: 3000000 INFO @ Tue, 14 Jul 2020 08:42:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:42:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:42:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.05_summits.bed INFO @ Tue, 14 Jul 2020 08:42:54: Done! pass1 - making usageList (126 chroms): 1 millis pass2 - checking and writing primary data (6554 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:42:58: 4000000 INFO @ Tue, 14 Jul 2020 08:43:00: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:43:00: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:43:00: #1 total tags in treatment: 4288616 INFO @ Tue, 14 Jul 2020 08:43:00: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:43:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:43:00: #1 tags after filtering in treatment: 4287980 INFO @ Tue, 14 Jul 2020 08:43:00: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:43:00: #1 finished! INFO @ Tue, 14 Jul 2020 08:43:00: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:43:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:43:01: #2 number of paired peaks: 9511 INFO @ Tue, 14 Jul 2020 08:43:01: start model_add_line... INFO @ Tue, 14 Jul 2020 08:43:01: start X-correlation... INFO @ Tue, 14 Jul 2020 08:43:01: end of X-cor INFO @ Tue, 14 Jul 2020 08:43:01: #2 finished! INFO @ Tue, 14 Jul 2020 08:43:01: #2 predicted fragment length is 168 bps INFO @ Tue, 14 Jul 2020 08:43:01: #2 alternative fragment length(s) may be 168 bps INFO @ Tue, 14 Jul 2020 08:43:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.10_model.r INFO @ Tue, 14 Jul 2020 08:43:01: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:43:01: #3 Pre-compute pvalue-qvalue table... BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:43:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.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, 14 Jul 2020 08:43:06: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:43:06: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:43:12: 1000000 INFO @ Tue, 14 Jul 2020 08:43:14: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:43:17: 2000000 INFO @ Tue, 14 Jul 2020 08:43:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:43:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:43:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.10_summits.bed INFO @ Tue, 14 Jul 2020 08:43:20: Done! pass1 - making usageList (107 chroms): 1 millis pass2 - checking and writing primary data (5092 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:43:23: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:43:29: 4000000 INFO @ Tue, 14 Jul 2020 08:43:30: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:43:30: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:43:30: #1 total tags in treatment: 4288616 INFO @ Tue, 14 Jul 2020 08:43:30: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:43:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:43:30: #1 tags after filtering in treatment: 4287980 INFO @ Tue, 14 Jul 2020 08:43:30: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:43:30: #1 finished! INFO @ Tue, 14 Jul 2020 08:43:30: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:43:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:43:31: #2 number of paired peaks: 9511 INFO @ Tue, 14 Jul 2020 08:43:31: start model_add_line... INFO @ Tue, 14 Jul 2020 08:43:31: start X-correlation... INFO @ Tue, 14 Jul 2020 08:43:31: end of X-cor INFO @ Tue, 14 Jul 2020 08:43:31: #2 finished! INFO @ Tue, 14 Jul 2020 08:43:31: #2 predicted fragment length is 168 bps INFO @ Tue, 14 Jul 2020 08:43:31: #2 alternative fragment length(s) may be 168 bps INFO @ Tue, 14 Jul 2020 08:43:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.20_model.r INFO @ Tue, 14 Jul 2020 08:43:31: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:43:31: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:43:44: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:43:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:43:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:43:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7262540/SRX7262540.20_summits.bed INFO @ Tue, 14 Jul 2020 08:43:50: Done! pass1 - making usageList (97 chroms): 1 millis pass2 - checking and writing primary data (3503 records, 4 fields): 7 millis CompletedMACS2peakCalling