Job ID = 14172334 SRX = SRX7434117 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 12631188 spots for SRR10759883/SRR10759883.sra Written 12631188 spots for SRR10759883/SRR10759883.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172796 ("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: 00:02:51 12631188 reads; of these: 12631188 (100.00%) were unpaired; of these: 2772803 (21.95%) aligned 0 times 7740260 (61.28%) aligned exactly 1 time 2118125 (16.77%) aligned >1 times 78.05% overall alignment rate Time searching: 00:02:51 Overall time: 00:02:51 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] 6686173 / 9858385 = 0.6782 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 15:13:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.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 15:13:44: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:13:44: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:13:49: 1000000 INFO @ Sat, 11 Dec 2021 15:13:54: 2000000 INFO @ Sat, 11 Dec 2021 15:13:59: 3000000 INFO @ Sat, 11 Dec 2021 15:14:00: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:14:00: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:14:00: #1 total tags in treatment: 3172212 INFO @ Sat, 11 Dec 2021 15:14:00: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:14:00: #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 15:14:00: #1 tags after filtering in treatment: 3172212 INFO @ Sat, 11 Dec 2021 15:14:00: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:14:00: #1 finished! INFO @ Sat, 11 Dec 2021 15:14:00: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:14:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:14:00: #2 number of paired peaks: 3991 INFO @ Sat, 11 Dec 2021 15:14:00: start model_add_line... INFO @ Sat, 11 Dec 2021 15:14:00: start X-correlation... INFO @ Sat, 11 Dec 2021 15:14:00: end of X-cor INFO @ Sat, 11 Dec 2021 15:14:00: #2 finished! INFO @ Sat, 11 Dec 2021 15:14:00: #2 predicted fragment length is 197 bps INFO @ Sat, 11 Dec 2021 15:14:00: #2 alternative fragment length(s) may be 197 bps INFO @ Sat, 11 Dec 2021 15:14:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.05_model.r INFO @ Sat, 11 Dec 2021 15:14:00: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:14:00: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:14:08: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:14:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:14:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:14:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.05_summits.bed INFO @ Sat, 11 Dec 2021 15:14:12: Done! 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 pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (4003 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:14:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.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 15:14:15: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:14:15: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:14:20: 1000000 INFO @ Sat, 11 Dec 2021 15:14:25: 2000000 INFO @ Sat, 11 Dec 2021 15:14:30: 3000000 INFO @ Sat, 11 Dec 2021 15:14:31: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:14:31: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:14:31: #1 total tags in treatment: 3172212 INFO @ Sat, 11 Dec 2021 15:14:31: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:14:31: #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 15:14:31: #1 tags after filtering in treatment: 3172212 INFO @ Sat, 11 Dec 2021 15:14:31: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:14:31: #1 finished! INFO @ Sat, 11 Dec 2021 15:14:31: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:14:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:14:31: #2 number of paired peaks: 3991 INFO @ Sat, 11 Dec 2021 15:14:31: start model_add_line... INFO @ Sat, 11 Dec 2021 15:14:31: start X-correlation... INFO @ Sat, 11 Dec 2021 15:14:31: end of X-cor INFO @ Sat, 11 Dec 2021 15:14:31: #2 finished! INFO @ Sat, 11 Dec 2021 15:14:31: #2 predicted fragment length is 197 bps INFO @ Sat, 11 Dec 2021 15:14:31: #2 alternative fragment length(s) may be 197 bps INFO @ Sat, 11 Dec 2021 15:14:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.10_model.r INFO @ Sat, 11 Dec 2021 15:14:31: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:14:31: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:14:39: #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 15:14:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:14:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:14:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.10_summits.bed INFO @ Sat, 11 Dec 2021 15:14:43: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (3063 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:14:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.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 15:14:44: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:14:44: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:14:50: 1000000 INFO @ Sat, 11 Dec 2021 15:14:56: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:15:02: 3000000 INFO @ Sat, 11 Dec 2021 15:15:03: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:15:03: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:15:03: #1 total tags in treatment: 3172212 INFO @ Sat, 11 Dec 2021 15:15:03: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:15:03: #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 15:15:03: #1 tags after filtering in treatment: 3172212 INFO @ Sat, 11 Dec 2021 15:15:03: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:15:03: #1 finished! INFO @ Sat, 11 Dec 2021 15:15:03: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:15:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:15:03: #2 number of paired peaks: 3991 INFO @ Sat, 11 Dec 2021 15:15:03: start model_add_line... INFO @ Sat, 11 Dec 2021 15:15:03: start X-correlation... INFO @ Sat, 11 Dec 2021 15:15:03: end of X-cor INFO @ Sat, 11 Dec 2021 15:15:03: #2 finished! INFO @ Sat, 11 Dec 2021 15:15:03: #2 predicted fragment length is 197 bps INFO @ Sat, 11 Dec 2021 15:15:03: #2 alternative fragment length(s) may be 197 bps INFO @ Sat, 11 Dec 2021 15:15:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.20_model.r INFO @ Sat, 11 Dec 2021 15:15:03: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:15:03: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:15:11: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:15:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:15:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:15:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434117/SRX7434117.20_summits.bed INFO @ Sat, 11 Dec 2021 15:15:15: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (2152 records, 4 fields): 4 millis CompletedMACS2peakCalling