Job ID = 14166940 SRX = SRX7434142 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 9866188 spots for SRR10759908/SRR10759908.sra Written 9866188 spots for SRR10759908/SRR10759908.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167063 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:02:11 9866188 reads; of these: 9866188 (100.00%) were unpaired; of these: 2346618 (23.78%) aligned 0 times 6160055 (62.44%) aligned exactly 1 time 1359515 (13.78%) aligned >1 times 76.22% overall alignment rate Time searching: 00:02:12 Overall time: 00:02:12 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] 3016691 / 7519570 = 0.4012 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 @ Fri, 10 Dec 2021 08:07:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.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 @ Fri, 10 Dec 2021 08:07:47: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:07:47: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:07:52: 1000000 INFO @ Fri, 10 Dec 2021 08:07:57: 2000000 INFO @ Fri, 10 Dec 2021 08:08:02: 3000000 INFO @ Fri, 10 Dec 2021 08:08:07: 4000000 INFO @ Fri, 10 Dec 2021 08:08:10: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 08:08:10: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 08:08:10: #1 total tags in treatment: 4502879 INFO @ Fri, 10 Dec 2021 08:08:10: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:08:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 08:08:10: #1 tags after filtering in treatment: 4502879 INFO @ Fri, 10 Dec 2021 08:08:10: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:08:10: #1 finished! INFO @ Fri, 10 Dec 2021 08:08:10: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:08:10: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:08:10: #2 number of paired peaks: 3541 INFO @ Fri, 10 Dec 2021 08:08:10: start model_add_line... INFO @ Fri, 10 Dec 2021 08:08:10: start X-correlation... INFO @ Fri, 10 Dec 2021 08:08:10: end of X-cor INFO @ Fri, 10 Dec 2021 08:08:10: #2 finished! INFO @ Fri, 10 Dec 2021 08:08:10: #2 predicted fragment length is 197 bps INFO @ Fri, 10 Dec 2021 08:08:10: #2 alternative fragment length(s) may be 197 bps INFO @ Fri, 10 Dec 2021 08:08:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.05_model.r INFO @ Fri, 10 Dec 2021 08:08:10: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:08:10: #3 Pre-compute pvalue-qvalue table... 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 @ Fri, 10 Dec 2021 08:08:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.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 @ Fri, 10 Dec 2021 08:08:16: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:08:16: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:08:21: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:08:21: 1000000 INFO @ Fri, 10 Dec 2021 08:08:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.05_peaks.xls INFO @ Fri, 10 Dec 2021 08:08:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:08:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.05_summits.bed INFO @ Fri, 10 Dec 2021 08:08:26: Done! pass1 - making usageList (15 chroms): 1 millis INFO @ Fri, 10 Dec 2021 08:08:26: 2000000 pass2 - checking and writing primary data (4128 records, 4 fields): 21 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 08:08:31: 3000000 INFO @ Fri, 10 Dec 2021 08:08:36: 4000000 INFO @ Fri, 10 Dec 2021 08:08:39: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 08:08:39: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 08:08:39: #1 total tags in treatment: 4502879 INFO @ Fri, 10 Dec 2021 08:08:39: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:08:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 08:08:39: #1 tags after filtering in treatment: 4502879 INFO @ Fri, 10 Dec 2021 08:08:39: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:08:39: #1 finished! INFO @ Fri, 10 Dec 2021 08:08:39: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:08:39: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:08:39: #2 number of paired peaks: 3541 INFO @ Fri, 10 Dec 2021 08:08:40: start model_add_line... INFO @ Fri, 10 Dec 2021 08:08:40: start X-correlation... INFO @ Fri, 10 Dec 2021 08:08:40: end of X-cor INFO @ Fri, 10 Dec 2021 08:08:40: #2 finished! INFO @ Fri, 10 Dec 2021 08:08:40: #2 predicted fragment length is 197 bps INFO @ Fri, 10 Dec 2021 08:08:40: #2 alternative fragment length(s) may be 197 bps INFO @ Fri, 10 Dec 2021 08:08:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.10_model.r INFO @ Fri, 10 Dec 2021 08:08:40: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:08:40: #3 Pre-compute pvalue-qvalue table... 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 @ Fri, 10 Dec 2021 08:08:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.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 @ Fri, 10 Dec 2021 08:08:46: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:08:46: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:08:51: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:08:51: 1000000 INFO @ Fri, 10 Dec 2021 08:08:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.10_peaks.xls INFO @ Fri, 10 Dec 2021 08:08:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:08:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.10_summits.bed INFO @ Fri, 10 Dec 2021 08:08:56: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (3178 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 08:08:56: 2000000 INFO @ Fri, 10 Dec 2021 08:09:01: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 08:09:07: 4000000 INFO @ Fri, 10 Dec 2021 08:09:09: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 08:09:09: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 08:09:09: #1 total tags in treatment: 4502879 INFO @ Fri, 10 Dec 2021 08:09:09: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:09:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 08:09:09: #1 tags after filtering in treatment: 4502879 INFO @ Fri, 10 Dec 2021 08:09:09: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:09:09: #1 finished! INFO @ Fri, 10 Dec 2021 08:09:09: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:09:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:09:10: #2 number of paired peaks: 3541 INFO @ Fri, 10 Dec 2021 08:09:10: start model_add_line... INFO @ Fri, 10 Dec 2021 08:09:10: start X-correlation... INFO @ Fri, 10 Dec 2021 08:09:10: end of X-cor INFO @ Fri, 10 Dec 2021 08:09:10: #2 finished! INFO @ Fri, 10 Dec 2021 08:09:10: #2 predicted fragment length is 197 bps INFO @ Fri, 10 Dec 2021 08:09:10: #2 alternative fragment length(s) may be 197 bps INFO @ Fri, 10 Dec 2021 08:09:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.20_model.r INFO @ Fri, 10 Dec 2021 08:09:10: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:09:10: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 08:09:21: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:09:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.20_peaks.xls INFO @ Fri, 10 Dec 2021 08:09:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:09:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434142/SRX7434142.20_summits.bed INFO @ Fri, 10 Dec 2021 08:09:26: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (2464 records, 4 fields): 4 millis CompletedMACS2peakCalling