Job ID = 16439327 SRX = SRX15206454 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: 00:06:20 16316366 reads; of these: 16316366 (100.00%) were unpaired; of these: 648814 (3.98%) aligned 0 times 8952653 (54.87%) aligned exactly 1 time 6714899 (41.15%) aligned >1 times 96.02% overall alignment rate Time searching: 00:06:21 Overall time: 00:06:21 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_sort_core] merging from 8 files... [bam_rmdupse_core] 5660645 / 15667552 = 0.3613 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 15:05:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.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 15:05:57: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:05:57: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:06:04: 1000000 INFO @ Tue, 02 Aug 2022 15:06:10: 2000000 INFO @ Tue, 02 Aug 2022 15:06:16: 3000000 INFO @ Tue, 02 Aug 2022 15:06:22: 4000000 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 15:06:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.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 15:06:27: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:06:27: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:06:29: 5000000 INFO @ Tue, 02 Aug 2022 15:06:35: 6000000 INFO @ Tue, 02 Aug 2022 15:06:36: 1000000 INFO @ Tue, 02 Aug 2022 15:06:41: 7000000 INFO @ Tue, 02 Aug 2022 15:06:44: 2000000 INFO @ Tue, 02 Aug 2022 15:06:48: 8000000 INFO @ Tue, 02 Aug 2022 15:06:53: 3000000 INFO @ Tue, 02 Aug 2022 15:06:54: 9000000 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 15:06:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.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 15:06:57: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:06:57: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:07:01: 10000000 INFO @ Tue, 02 Aug 2022 15:07:01: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 15:07:01: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 15:07:01: #1 total tags in treatment: 10006907 INFO @ Tue, 02 Aug 2022 15:07:01: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:07:01: #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 15:07:01: #1 tags after filtering in treatment: 10006753 INFO @ Tue, 02 Aug 2022 15:07:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 15:07:01: #1 finished! INFO @ Tue, 02 Aug 2022 15:07:01: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:07:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:07:02: 4000000 INFO @ Tue, 02 Aug 2022 15:07:03: #2 number of paired peaks: 7553 INFO @ Tue, 02 Aug 2022 15:07:03: start model_add_line... INFO @ Tue, 02 Aug 2022 15:07:03: start X-correlation... INFO @ Tue, 02 Aug 2022 15:07:03: end of X-cor INFO @ Tue, 02 Aug 2022 15:07:03: #2 finished! INFO @ Tue, 02 Aug 2022 15:07:03: #2 predicted fragment length is 222 bps INFO @ Tue, 02 Aug 2022 15:07:03: #2 alternative fragment length(s) may be 222 bps INFO @ Tue, 02 Aug 2022 15:07:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.05_model.r INFO @ Tue, 02 Aug 2022 15:07:03: #3 Call peaks... INFO @ Tue, 02 Aug 2022 15:07:03: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 15:07:03: 1000000 INFO @ Tue, 02 Aug 2022 15:07:09: 2000000 INFO @ Tue, 02 Aug 2022 15:07:11: 5000000 INFO @ Tue, 02 Aug 2022 15:07:15: 3000000 INFO @ Tue, 02 Aug 2022 15:07:19: 6000000 INFO @ Tue, 02 Aug 2022 15:07:21: 4000000 INFO @ Tue, 02 Aug 2022 15:07:26: 5000000 INFO @ Tue, 02 Aug 2022 15:07:28: 7000000 INFO @ Tue, 02 Aug 2022 15:07:32: 6000000 INFO @ Tue, 02 Aug 2022 15:07:37: 8000000 INFO @ Tue, 02 Aug 2022 15:07:38: 7000000 INFO @ Tue, 02 Aug 2022 15:07:44: 8000000 INFO @ Tue, 02 Aug 2022 15:07:45: 9000000 INFO @ Tue, 02 Aug 2022 15:07:48: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 15:07:50: 9000000 INFO @ Tue, 02 Aug 2022 15:07:54: 10000000 INFO @ Tue, 02 Aug 2022 15:07:54: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 15:07:54: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 15:07:54: #1 total tags in treatment: 10006907 INFO @ Tue, 02 Aug 2022 15:07:54: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:07:54: #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 15:07:55: #1 tags after filtering in treatment: 10006753 INFO @ Tue, 02 Aug 2022 15:07:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 15:07:55: #1 finished! INFO @ Tue, 02 Aug 2022 15:07:55: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:07:55: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 15:07:56: #2 number of paired peaks: 7553 INFO @ Tue, 02 Aug 2022 15:07:56: start model_add_line... INFO @ Tue, 02 Aug 2022 15:07:56: 10000000 INFO @ Tue, 02 Aug 2022 15:07:56: start X-correlation... INFO @ Tue, 02 Aug 2022 15:07:56: end of X-cor INFO @ Tue, 02 Aug 2022 15:07:56: #2 finished! INFO @ Tue, 02 Aug 2022 15:07:56: #2 predicted fragment length is 222 bps INFO @ Tue, 02 Aug 2022 15:07:56: #2 alternative fragment length(s) may be 222 bps INFO @ Tue, 02 Aug 2022 15:07:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.10_model.r INFO @ Tue, 02 Aug 2022 15:07:56: #3 Call peaks... INFO @ Tue, 02 Aug 2022 15:07:56: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 15:07:56: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 15:07:56: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 15:07:56: #1 total tags in treatment: 10006907 INFO @ Tue, 02 Aug 2022 15:07:56: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:07:56: #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 15:07:57: #1 tags after filtering in treatment: 10006753 INFO @ Tue, 02 Aug 2022 15:07:57: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 15:07:57: #1 finished! INFO @ Tue, 02 Aug 2022 15:07:57: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:07:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:07:58: #2 number of paired peaks: 7553 INFO @ Tue, 02 Aug 2022 15:07:58: start model_add_line... INFO @ Tue, 02 Aug 2022 15:07:58: start X-correlation... INFO @ Tue, 02 Aug 2022 15:07:58: end of X-cor INFO @ Tue, 02 Aug 2022 15:07:58: #2 finished! INFO @ Tue, 02 Aug 2022 15:07:58: #2 predicted fragment length is 222 bps INFO @ Tue, 02 Aug 2022 15:07:58: #2 alternative fragment length(s) may be 222 bps INFO @ Tue, 02 Aug 2022 15:07:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.20_model.r INFO @ Tue, 02 Aug 2022 15:07:58: #3 Call peaks... INFO @ Tue, 02 Aug 2022 15:07:58: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 15:07:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.05_peaks.xls INFO @ Tue, 02 Aug 2022 15:07:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 15:07:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.05_summits.bed INFO @ Tue, 02 Aug 2022 15:07:59: Done! pass1 - making usageList (459 chroms): 3 millis pass2 - checking and writing primary data (7202 records, 4 fields): 52 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 15:08:42: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 15:08:43: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 15:08:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.10_peaks.xls INFO @ Tue, 02 Aug 2022 15:08:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 15:08:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.10_summits.bed INFO @ Tue, 02 Aug 2022 15:08:53: Done! pass1 - making usageList (402 chroms): 2 millis pass2 - checking and writing primary data (5047 records, 4 fields): 67 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 15:08:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.20_peaks.xls INFO @ Tue, 02 Aug 2022 15:08:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 15:08:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206454/SRX15206454.20_summits.bed INFO @ Tue, 02 Aug 2022 15:08:54: Done! pass1 - making usageList (339 chroms): 2 millis pass2 - checking and writing primary data (2949 records, 4 fields): 25 millis CompletedMACS2peakCalling