Job ID = 14171135 SRX = SRX9434473 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: 00:09:49 28824921 reads; of these: 28824921 (100.00%) were unpaired; of these: 633770 (2.20%) aligned 0 times 6540180 (22.69%) aligned exactly 1 time 21650971 (75.11%) aligned >1 times 97.80% overall alignment rate Time searching: 00:09:49 Overall time: 00:09:49 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 12 files... [bam_rmdupse_core] 13666382 / 28191151 = 0.4848 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 09:57:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.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 09:57:28: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:57:28: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:57:33: 1000000 INFO @ Sat, 11 Dec 2021 09:57:38: 2000000 INFO @ Sat, 11 Dec 2021 09:57:43: 3000000 INFO @ Sat, 11 Dec 2021 09:57:48: 4000000 INFO @ Sat, 11 Dec 2021 09:57:53: 5000000 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 09:57:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.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 09:57:58: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:57:58: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:57:58: 6000000 INFO @ Sat, 11 Dec 2021 09:58:04: 7000000 INFO @ Sat, 11 Dec 2021 09:58:04: 1000000 INFO @ Sat, 11 Dec 2021 09:58:09: 8000000 INFO @ Sat, 11 Dec 2021 09:58:10: 2000000 INFO @ Sat, 11 Dec 2021 09:58:15: 9000000 INFO @ Sat, 11 Dec 2021 09:58:15: 3000000 INFO @ Sat, 11 Dec 2021 09:58:20: 10000000 INFO @ Sat, 11 Dec 2021 09:58:21: 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 09:58:26: 11000000 INFO @ Sat, 11 Dec 2021 09:58:27: 5000000 INFO @ Sat, 11 Dec 2021 09:58:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.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 09:58:28: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:58:28: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:58:32: 12000000 INFO @ Sat, 11 Dec 2021 09:58:32: 6000000 INFO @ Sat, 11 Dec 2021 09:58:34: 1000000 INFO @ Sat, 11 Dec 2021 09:58:37: 13000000 INFO @ Sat, 11 Dec 2021 09:58:38: 7000000 INFO @ Sat, 11 Dec 2021 09:58:40: 2000000 INFO @ Sat, 11 Dec 2021 09:58:43: 14000000 INFO @ Sat, 11 Dec 2021 09:58:43: 8000000 INFO @ Sat, 11 Dec 2021 09:58:46: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:58:46: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:58:46: #1 total tags in treatment: 14524769 INFO @ Sat, 11 Dec 2021 09:58:46: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:58:46: #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 09:58:46: 3000000 INFO @ Sat, 11 Dec 2021 09:58:47: #1 tags after filtering in treatment: 14524710 INFO @ Sat, 11 Dec 2021 09:58:47: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:58:47: #1 finished! INFO @ Sat, 11 Dec 2021 09:58:47: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:58:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:58:49: #2 number of paired peaks: 9730 INFO @ Sat, 11 Dec 2021 09:58:49: start model_add_line... INFO @ Sat, 11 Dec 2021 09:58:49: start X-correlation... INFO @ Sat, 11 Dec 2021 09:58:49: end of X-cor INFO @ Sat, 11 Dec 2021 09:58:49: #2 finished! INFO @ Sat, 11 Dec 2021 09:58:49: #2 predicted fragment length is 114 bps INFO @ Sat, 11 Dec 2021 09:58:49: #2 alternative fragment length(s) may be 2,114 bps INFO @ Sat, 11 Dec 2021 09:58:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.05_model.r INFO @ Sat, 11 Dec 2021 09:58:49: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:58:49: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:58:49: 9000000 INFO @ Sat, 11 Dec 2021 09:58:52: 4000000 INFO @ Sat, 11 Dec 2021 09:58:55: 10000000 INFO @ Sat, 11 Dec 2021 09:58:59: 5000000 INFO @ Sat, 11 Dec 2021 09:59:01: 11000000 INFO @ Sat, 11 Dec 2021 09:59:05: 6000000 INFO @ Sat, 11 Dec 2021 09:59:06: 12000000 INFO @ Sat, 11 Dec 2021 09:59:11: 7000000 INFO @ Sat, 11 Dec 2021 09:59:12: 13000000 INFO @ Sat, 11 Dec 2021 09:59:17: 8000000 INFO @ Sat, 11 Dec 2021 09:59:18: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 09:59:21: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:59:21: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:59:21: #1 total tags in treatment: 14524769 INFO @ Sat, 11 Dec 2021 09:59:21: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:59:21: #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 09:59:21: #1 tags after filtering in treatment: 14524710 INFO @ Sat, 11 Dec 2021 09:59:21: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:59:21: #1 finished! INFO @ Sat, 11 Dec 2021 09:59:21: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:59:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:59:23: #2 number of paired peaks: 9730 INFO @ Sat, 11 Dec 2021 09:59:23: start model_add_line... INFO @ Sat, 11 Dec 2021 09:59:23: 9000000 INFO @ Sat, 11 Dec 2021 09:59:23: start X-correlation... INFO @ Sat, 11 Dec 2021 09:59:23: end of X-cor INFO @ Sat, 11 Dec 2021 09:59:23: #2 finished! INFO @ Sat, 11 Dec 2021 09:59:23: #2 predicted fragment length is 114 bps INFO @ Sat, 11 Dec 2021 09:59:23: #2 alternative fragment length(s) may be 2,114 bps INFO @ Sat, 11 Dec 2021 09:59:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.10_model.r INFO @ Sat, 11 Dec 2021 09:59:23: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:59:23: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:59:24: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:59:29: 10000000 INFO @ Sat, 11 Dec 2021 09:59:35: 11000000 INFO @ Sat, 11 Dec 2021 09:59:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.05_peaks.xls INFO @ Sat, 11 Dec 2021 09:59:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:59:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.05_summits.bed INFO @ Sat, 11 Dec 2021 09:59:39: Done! pass1 - making usageList (1177 chroms): 3 millis pass2 - checking and writing primary data (10863 records, 4 fields): 40 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 09:59:41: 12000000 INFO @ Sat, 11 Dec 2021 09:59:47: 13000000 INFO @ Sat, 11 Dec 2021 09:59:53: 14000000 INFO @ Sat, 11 Dec 2021 09:59:56: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:59:56: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:59:56: #1 total tags in treatment: 14524769 INFO @ Sat, 11 Dec 2021 09:59:56: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:59:56: #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 09:59:57: #1 tags after filtering in treatment: 14524710 INFO @ Sat, 11 Dec 2021 09:59:57: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:59:57: #1 finished! INFO @ Sat, 11 Dec 2021 09:59:57: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:59:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:59:57: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:59:59: #2 number of paired peaks: 9730 INFO @ Sat, 11 Dec 2021 09:59:59: start model_add_line... INFO @ Sat, 11 Dec 2021 09:59:59: start X-correlation... INFO @ Sat, 11 Dec 2021 09:59:59: end of X-cor INFO @ Sat, 11 Dec 2021 09:59:59: #2 finished! INFO @ Sat, 11 Dec 2021 09:59:59: #2 predicted fragment length is 114 bps INFO @ Sat, 11 Dec 2021 09:59:59: #2 alternative fragment length(s) may be 2,114 bps INFO @ Sat, 11 Dec 2021 09:59:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.20_model.r INFO @ Sat, 11 Dec 2021 09:59:59: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:59:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 10:00:11: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.10_peaks.xls INFO @ Sat, 11 Dec 2021 10:00:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 10:00:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.10_summits.bed INFO @ Sat, 11 Dec 2021 10:00:12: Done! pass1 - making usageList (1063 chroms): 2 millis pass2 - checking and writing primary data (6372 records, 4 fields): 33 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 10:00:37: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 10:00:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.20_peaks.xls INFO @ Sat, 11 Dec 2021 10:00:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 10:00:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9434473/SRX9434473.20_summits.bed INFO @ Sat, 11 Dec 2021 10:00:53: Done! pass1 - making usageList (899 chroms): 1 millis pass2 - checking and writing primary data (2956 records, 4 fields): 25 millis CompletedMACS2peakCalling