Job ID = 14172479 SRX = SRX7434138 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 12653498 spots for SRR10759904/SRR10759904.sra Written 12653498 spots for SRR10759904/SRR10759904.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172912 ("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: 00:02:56 12653498 reads; of these: 12653498 (100.00%) were unpaired; of these: 4496880 (35.54%) aligned 0 times 6130605 (48.45%) aligned exactly 1 time 2026013 (16.01%) aligned >1 times 64.46% overall alignment rate Time searching: 00:02:56 Overall time: 00:02:56 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_rmdupse_core] 2024626 / 8156618 = 0.2482 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 15:40:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.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 15:40:19: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:40:19: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:40:25: 1000000 INFO @ Sat, 11 Dec 2021 15:40:30: 2000000 INFO @ Sat, 11 Dec 2021 15:40:36: 3000000 INFO @ Sat, 11 Dec 2021 15:40:41: 4000000 INFO @ Sat, 11 Dec 2021 15:40:47: 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 15:40:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.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 15:40:49: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:40:49: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:40:52: 6000000 INFO @ Sat, 11 Dec 2021 15:40:53: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:40:53: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:40:53: #1 total tags in treatment: 6131992 INFO @ Sat, 11 Dec 2021 15:40:53: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:40:53: #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 15:40:53: #1 tags after filtering in treatment: 6131992 INFO @ Sat, 11 Dec 2021 15:40:53: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:40:53: #1 finished! INFO @ Sat, 11 Dec 2021 15:40:53: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:40:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:40:54: #2 number of paired peaks: 1187 INFO @ Sat, 11 Dec 2021 15:40:54: start model_add_line... INFO @ Sat, 11 Dec 2021 15:40:54: start X-correlation... INFO @ Sat, 11 Dec 2021 15:40:54: end of X-cor INFO @ Sat, 11 Dec 2021 15:40:54: #2 finished! INFO @ Sat, 11 Dec 2021 15:40:54: #2 predicted fragment length is 143 bps INFO @ Sat, 11 Dec 2021 15:40:54: #2 alternative fragment length(s) may be 143 bps INFO @ Sat, 11 Dec 2021 15:40:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.05_model.r INFO @ Sat, 11 Dec 2021 15:40:54: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:40:54: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:40:55: 1000000 INFO @ Sat, 11 Dec 2021 15:41:00: 2000000 INFO @ Sat, 11 Dec 2021 15:41:06: 3000000 INFO @ Sat, 11 Dec 2021 15:41:07: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:41:11: 4000000 INFO @ Sat, 11 Dec 2021 15:41:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:41:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:41:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.05_summits.bed INFO @ Sat, 11 Dec 2021 15:41:13: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (3070 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:41:17: 5000000 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 15:41:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.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 15:41:19: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:41:19: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:41:22: 6000000 INFO @ Sat, 11 Dec 2021 15:41:23: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:41:23: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:41:23: #1 total tags in treatment: 6131992 INFO @ Sat, 11 Dec 2021 15:41:23: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:41:23: #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 15:41:23: #1 tags after filtering in treatment: 6131992 INFO @ Sat, 11 Dec 2021 15:41:23: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:41:23: #1 finished! INFO @ Sat, 11 Dec 2021 15:41:23: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:41:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:41:24: #2 number of paired peaks: 1187 INFO @ Sat, 11 Dec 2021 15:41:24: start model_add_line... INFO @ Sat, 11 Dec 2021 15:41:24: start X-correlation... INFO @ Sat, 11 Dec 2021 15:41:24: end of X-cor INFO @ Sat, 11 Dec 2021 15:41:24: #2 finished! INFO @ Sat, 11 Dec 2021 15:41:24: #2 predicted fragment length is 143 bps INFO @ Sat, 11 Dec 2021 15:41:24: #2 alternative fragment length(s) may be 143 bps INFO @ Sat, 11 Dec 2021 15:41:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.10_model.r INFO @ Sat, 11 Dec 2021 15:41:24: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:41:24: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:41:25: 1000000 INFO @ Sat, 11 Dec 2021 15:41:30: 2000000 INFO @ Sat, 11 Dec 2021 15:41:36: 3000000 INFO @ Sat, 11 Dec 2021 15:41:37: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:41:41: 4000000 INFO @ Sat, 11 Dec 2021 15:41:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:41:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:41:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.10_summits.bed INFO @ Sat, 11 Dec 2021 15:41:43: Done! pass1 - making usageList (14 chroms): 0 millis pass2 - checking and writing primary data (2089 records, 4 fields): 4 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:41:47: 5000000 INFO @ Sat, 11 Dec 2021 15:41:52: 6000000 INFO @ Sat, 11 Dec 2021 15:41:53: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:41:53: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:41:53: #1 total tags in treatment: 6131992 INFO @ Sat, 11 Dec 2021 15:41:53: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:41:53: #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 15:41:53: #1 tags after filtering in treatment: 6131992 INFO @ Sat, 11 Dec 2021 15:41:53: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:41:53: #1 finished! INFO @ Sat, 11 Dec 2021 15:41:53: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:41:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:41:53: #2 number of paired peaks: 1187 INFO @ Sat, 11 Dec 2021 15:41:53: start model_add_line... INFO @ Sat, 11 Dec 2021 15:41:54: start X-correlation... INFO @ Sat, 11 Dec 2021 15:41:54: end of X-cor INFO @ Sat, 11 Dec 2021 15:41:54: #2 finished! INFO @ Sat, 11 Dec 2021 15:41:54: #2 predicted fragment length is 143 bps INFO @ Sat, 11 Dec 2021 15:41:54: #2 alternative fragment length(s) may be 143 bps INFO @ Sat, 11 Dec 2021 15:41:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.20_model.r INFO @ Sat, 11 Dec 2021 15:41:54: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:41:54: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:42:07: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:42:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:42:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:42:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434138/SRX7434138.20_summits.bed INFO @ Sat, 11 Dec 2021 15:42:13: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (1390 records, 4 fields): 3 millis CompletedMACS2peakCalling