Job ID = 14172394 SRX = SRX7434120 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 13144160 spots for SRR10759886/SRR10759886.sra Written 13144160 spots for SRR10759886/SRR10759886.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172835 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:03:13 13144160 reads; of these: 13144160 (100.00%) were unpaired; of these: 2324303 (17.68%) aligned 0 times 8410074 (63.98%) aligned exactly 1 time 2409783 (18.33%) aligned >1 times 82.32% overall alignment rate Time searching: 00:03:13 Overall time: 00:03:13 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] 5063692 / 10819857 = 0.4680 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 15:22:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.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 15:22:09: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:22:09: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:22:16: 1000000 INFO @ Sat, 11 Dec 2021 15:22:23: 2000000 INFO @ Sat, 11 Dec 2021 15:22:30: 3000000 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 15:22:37: 4000000 INFO @ Sat, 11 Dec 2021 15:22:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.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 15:22:39: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:22:39: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:22:45: 5000000 INFO @ Sat, 11 Dec 2021 15:22:46: 1000000 INFO @ Sat, 11 Dec 2021 15:22:50: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:22:50: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:22:50: #1 total tags in treatment: 5756165 INFO @ Sat, 11 Dec 2021 15:22:50: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:22:50: #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 15:22:51: #1 tags after filtering in treatment: 5756165 INFO @ Sat, 11 Dec 2021 15:22:51: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:22:51: #1 finished! INFO @ Sat, 11 Dec 2021 15:22:51: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:22:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:22:51: #2 number of paired peaks: 2141 INFO @ Sat, 11 Dec 2021 15:22:51: start model_add_line... INFO @ Sat, 11 Dec 2021 15:22:51: start X-correlation... INFO @ Sat, 11 Dec 2021 15:22:51: end of X-cor INFO @ Sat, 11 Dec 2021 15:22:51: #2 finished! INFO @ Sat, 11 Dec 2021 15:22:51: #2 predicted fragment length is 228 bps INFO @ Sat, 11 Dec 2021 15:22:51: #2 alternative fragment length(s) may be 228 bps INFO @ Sat, 11 Dec 2021 15:22:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.05_model.r INFO @ Sat, 11 Dec 2021 15:22:51: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:22:51: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:22:53: 2000000 INFO @ Sat, 11 Dec 2021 15:23:01: 3000000 INFO @ Sat, 11 Dec 2021 15:23:05: #3 Call peaks for each chromosome... 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 15:23:08: 4000000 INFO @ Sat, 11 Dec 2021 15:23:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.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 15:23:09: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:23:09: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:23:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:23:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:23:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.05_summits.bed INFO @ Sat, 11 Dec 2021 15:23:12: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (3926 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:23:16: 1000000 INFO @ Sat, 11 Dec 2021 15:23:16: 5000000 INFO @ Sat, 11 Dec 2021 15:23:22: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:23:22: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:23:22: #1 total tags in treatment: 5756165 INFO @ Sat, 11 Dec 2021 15:23:22: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:23:22: #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 15:23:22: #1 tags after filtering in treatment: 5756165 INFO @ Sat, 11 Dec 2021 15:23:22: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:23:22: #1 finished! INFO @ Sat, 11 Dec 2021 15:23:22: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:23:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:23:22: #2 number of paired peaks: 2141 INFO @ Sat, 11 Dec 2021 15:23:22: start model_add_line... INFO @ Sat, 11 Dec 2021 15:23:22: start X-correlation... INFO @ Sat, 11 Dec 2021 15:23:22: end of X-cor INFO @ Sat, 11 Dec 2021 15:23:22: #2 finished! INFO @ Sat, 11 Dec 2021 15:23:22: #2 predicted fragment length is 228 bps INFO @ Sat, 11 Dec 2021 15:23:22: #2 alternative fragment length(s) may be 228 bps INFO @ Sat, 11 Dec 2021 15:23:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.10_model.r INFO @ Sat, 11 Dec 2021 15:23:22: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:23:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:23:22: 2000000 INFO @ Sat, 11 Dec 2021 15:23:29: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:23:35: 4000000 INFO @ Sat, 11 Dec 2021 15:23:36: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:23:41: 5000000 INFO @ Sat, 11 Dec 2021 15:23:42: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:23:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:23:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.10_summits.bed INFO @ Sat, 11 Dec 2021 15:23:42: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (2811 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:23:45: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:23:45: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:23:45: #1 total tags in treatment: 5756165 INFO @ Sat, 11 Dec 2021 15:23:45: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:23:45: #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 15:23:45: #1 tags after filtering in treatment: 5756165 INFO @ Sat, 11 Dec 2021 15:23:45: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:23:45: #1 finished! INFO @ Sat, 11 Dec 2021 15:23:45: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:23:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:23:45: #2 number of paired peaks: 2141 INFO @ Sat, 11 Dec 2021 15:23:45: start model_add_line... INFO @ Sat, 11 Dec 2021 15:23:45: start X-correlation... INFO @ Sat, 11 Dec 2021 15:23:46: end of X-cor INFO @ Sat, 11 Dec 2021 15:23:46: #2 finished! INFO @ Sat, 11 Dec 2021 15:23:46: #2 predicted fragment length is 228 bps INFO @ Sat, 11 Dec 2021 15:23:46: #2 alternative fragment length(s) may be 228 bps INFO @ Sat, 11 Dec 2021 15:23:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.20_model.r INFO @ Sat, 11 Dec 2021 15:23:46: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:23:46: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:23:59: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:24:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:24:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:24:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434120/SRX7434120.20_summits.bed INFO @ Sat, 11 Dec 2021 15:24:05: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (1903 records, 4 fields): 74 millis CompletedMACS2peakCalling