Job ID = 16439848 SRX = SRX14894244 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: 00:10:32 43628885 reads; of these: 43628885 (100.00%) were unpaired; of these: 27433577 (62.88%) aligned 0 times 12129040 (27.80%) aligned exactly 1 time 4066268 (9.32%) aligned >1 times 37.12% overall alignment rate Time searching: 00:10:32 Overall time: 00:10:32 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] 10318478 / 16195308 = 0.6371 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 16:35:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.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 16:35:46: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:35:46: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:35:58: 1000000 INFO @ Tue, 02 Aug 2022 16:36:09: 2000000 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 16:36:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.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 16:36:14: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:36:14: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:36:21: 3000000 INFO @ Tue, 02 Aug 2022 16:36:25: 1000000 INFO @ Tue, 02 Aug 2022 16:36:34: 4000000 INFO @ Tue, 02 Aug 2022 16:36:35: 2000000 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 16:36:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.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 16:36:44: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:36:44: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:36:45: 3000000 INFO @ Tue, 02 Aug 2022 16:36:47: 5000000 INFO @ Tue, 02 Aug 2022 16:36:55: 4000000 INFO @ Tue, 02 Aug 2022 16:36:57: 1000000 INFO @ Tue, 02 Aug 2022 16:36:58: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:36:58: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:36:58: #1 total tags in treatment: 5876830 INFO @ Tue, 02 Aug 2022 16:36:58: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:36:58: #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 16:36:59: #1 tags after filtering in treatment: 5876727 INFO @ Tue, 02 Aug 2022 16:36:59: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:36:59: #1 finished! INFO @ Tue, 02 Aug 2022 16:36:59: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:36:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:36:59: #2 number of paired peaks: 2958 INFO @ Tue, 02 Aug 2022 16:36:59: start model_add_line... INFO @ Tue, 02 Aug 2022 16:36:59: start X-correlation... INFO @ Tue, 02 Aug 2022 16:37:00: end of X-cor INFO @ Tue, 02 Aug 2022 16:37:00: #2 finished! INFO @ Tue, 02 Aug 2022 16:37:00: #2 predicted fragment length is 187 bps INFO @ Tue, 02 Aug 2022 16:37:00: #2 alternative fragment length(s) may be 4,187 bps INFO @ Tue, 02 Aug 2022 16:37:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.05_model.r INFO @ Tue, 02 Aug 2022 16:37:00: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:37:00: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:37:08: 5000000 INFO @ Tue, 02 Aug 2022 16:37:08: 2000000 INFO @ Tue, 02 Aug 2022 16:37:18: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:37:18: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:37:18: #1 total tags in treatment: 5876830 INFO @ Tue, 02 Aug 2022 16:37:18: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:37:18: #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 16:37:18: #1 tags after filtering in treatment: 5876727 INFO @ Tue, 02 Aug 2022 16:37:18: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:37:18: #1 finished! INFO @ Tue, 02 Aug 2022 16:37:18: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:37:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:37:18: 3000000 INFO @ Tue, 02 Aug 2022 16:37:19: #2 number of paired peaks: 2958 INFO @ Tue, 02 Aug 2022 16:37:19: start model_add_line... INFO @ Tue, 02 Aug 2022 16:37:19: start X-correlation... INFO @ Tue, 02 Aug 2022 16:37:19: end of X-cor INFO @ Tue, 02 Aug 2022 16:37:19: #2 finished! INFO @ Tue, 02 Aug 2022 16:37:19: #2 predicted fragment length is 187 bps INFO @ Tue, 02 Aug 2022 16:37:19: #2 alternative fragment length(s) may be 4,187 bps INFO @ Tue, 02 Aug 2022 16:37:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.10_model.r INFO @ Tue, 02 Aug 2022 16:37:19: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:37:19: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:37:20: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:37:29: 4000000 INFO @ Tue, 02 Aug 2022 16:37:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.05_peaks.xls INFO @ Tue, 02 Aug 2022 16:37:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:37:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.05_summits.bed INFO @ Tue, 02 Aug 2022 16:37:30: Done! pass1 - making usageList (770 chroms): 4 millis pass2 - checking and writing primary data (3074 records, 4 fields): 59 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:37:40: 5000000 INFO @ Tue, 02 Aug 2022 16:37:42: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:37:49: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:37:49: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:37:49: #1 total tags in treatment: 5876830 INFO @ Tue, 02 Aug 2022 16:37:49: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:37:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 16:37:50: #1 tags after filtering in treatment: 5876727 INFO @ Tue, 02 Aug 2022 16:37:50: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:37:50: #1 finished! INFO @ Tue, 02 Aug 2022 16:37:50: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:37:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:37:51: #2 number of paired peaks: 2958 INFO @ Tue, 02 Aug 2022 16:37:51: start model_add_line... INFO @ Tue, 02 Aug 2022 16:37:51: start X-correlation... INFO @ Tue, 02 Aug 2022 16:37:51: end of X-cor INFO @ Tue, 02 Aug 2022 16:37:51: #2 finished! INFO @ Tue, 02 Aug 2022 16:37:51: #2 predicted fragment length is 187 bps INFO @ Tue, 02 Aug 2022 16:37:51: #2 alternative fragment length(s) may be 4,187 bps INFO @ Tue, 02 Aug 2022 16:37:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.20_model.r INFO @ Tue, 02 Aug 2022 16:37:51: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:37:51: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:37:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.10_peaks.xls INFO @ Tue, 02 Aug 2022 16:37:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:37:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.10_summits.bed INFO @ Tue, 02 Aug 2022 16:37:54: Done! pass1 - making usageList (683 chroms): 4 millis pass2 - checking and writing primary data (1929 records, 4 fields): 55 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:38:13: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:38:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.20_peaks.xls INFO @ Tue, 02 Aug 2022 16:38:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:38:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14894244/SRX14894244.20_summits.bed INFO @ Tue, 02 Aug 2022 16:38:25: Done! pass1 - making usageList (509 chroms): 2 millis pass2 - checking and writing primary data (1057 records, 4 fields): 86 millis CompletedMACS2peakCalling