Job ID = 14172405 SRX = SRX7434127 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 11431621 spots for SRR10759893/SRR10759893.sra Written 11431621 spots for SRR10759893/SRR10759893.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172833 ("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: 00:02:19 11431621 reads; of these: 11431621 (100.00%) were unpaired; of these: 4940170 (43.21%) aligned 0 times 4828618 (42.24%) aligned exactly 1 time 1662833 (14.55%) aligned >1 times 56.79% overall alignment rate Time searching: 00:02:19 Overall time: 00:02:19 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] 2815448 / 6491451 = 0.4337 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 15:21:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.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 15:21:07: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:21:07: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:21:11: 1000000 INFO @ Sat, 11 Dec 2021 15:21:16: 2000000 INFO @ Sat, 11 Dec 2021 15:21:21: 3000000 INFO @ Sat, 11 Dec 2021 15:21:24: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:21:24: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:21:24: #1 total tags in treatment: 3676003 INFO @ Sat, 11 Dec 2021 15:21:24: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:21:24: #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 15:21:24: #1 tags after filtering in treatment: 3676003 INFO @ Sat, 11 Dec 2021 15:21:24: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:21:24: #1 finished! INFO @ Sat, 11 Dec 2021 15:21:24: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:21:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:21:24: #2 number of paired peaks: 1554 INFO @ Sat, 11 Dec 2021 15:21:24: start model_add_line... INFO @ Sat, 11 Dec 2021 15:21:24: start X-correlation... INFO @ Sat, 11 Dec 2021 15:21:24: end of X-cor INFO @ Sat, 11 Dec 2021 15:21:24: #2 finished! INFO @ Sat, 11 Dec 2021 15:21:24: #2 predicted fragment length is 178 bps INFO @ Sat, 11 Dec 2021 15:21:24: #2 alternative fragment length(s) may be 178 bps INFO @ Sat, 11 Dec 2021 15:21:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.05_model.r INFO @ Sat, 11 Dec 2021 15:21:24: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:21:24: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:21:33: #3 Call peaks for each chromosome... 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 15:21:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.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 15:21:37: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:21:37: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:21:37: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:21:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:21:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.05_summits.bed INFO @ Sat, 11 Dec 2021 15:21:37: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (2354 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:21:42: 1000000 INFO @ Sat, 11 Dec 2021 15:21:47: 2000000 INFO @ Sat, 11 Dec 2021 15:21:53: 3000000 INFO @ Sat, 11 Dec 2021 15:21:57: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:21:57: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:21:57: #1 total tags in treatment: 3676003 INFO @ Sat, 11 Dec 2021 15:21:57: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:21:57: #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 15:21:57: #1 tags after filtering in treatment: 3676003 INFO @ Sat, 11 Dec 2021 15:21:57: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:21:57: #1 finished! INFO @ Sat, 11 Dec 2021 15:21:57: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:21:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:21:57: #2 number of paired peaks: 1554 INFO @ Sat, 11 Dec 2021 15:21:57: start model_add_line... INFO @ Sat, 11 Dec 2021 15:21:57: start X-correlation... INFO @ Sat, 11 Dec 2021 15:21:57: end of X-cor INFO @ Sat, 11 Dec 2021 15:21:57: #2 finished! INFO @ Sat, 11 Dec 2021 15:21:57: #2 predicted fragment length is 178 bps INFO @ Sat, 11 Dec 2021 15:21:57: #2 alternative fragment length(s) may be 178 bps INFO @ Sat, 11 Dec 2021 15:21:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.10_model.r INFO @ Sat, 11 Dec 2021 15:21:57: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:21:57: #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 @ Sat, 11 Dec 2021 15:22:05: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:22:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.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 15:22:07: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:22:07: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:22:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:22:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:22:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.10_summits.bed INFO @ Sat, 11 Dec 2021 15:22:09: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (1611 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:22:11: 1000000 INFO @ Sat, 11 Dec 2021 15:22:16: 2000000 INFO @ Sat, 11 Dec 2021 15:22:21: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:22:24: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:22:24: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:22:24: #1 total tags in treatment: 3676003 INFO @ Sat, 11 Dec 2021 15:22:24: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:22:24: #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 15:22:24: #1 tags after filtering in treatment: 3676003 INFO @ Sat, 11 Dec 2021 15:22:24: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:22:24: #1 finished! INFO @ Sat, 11 Dec 2021 15:22:24: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:22:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:22:24: #2 number of paired peaks: 1554 INFO @ Sat, 11 Dec 2021 15:22:24: start model_add_line... INFO @ Sat, 11 Dec 2021 15:22:24: start X-correlation... INFO @ Sat, 11 Dec 2021 15:22:24: end of X-cor INFO @ Sat, 11 Dec 2021 15:22:24: #2 finished! INFO @ Sat, 11 Dec 2021 15:22:24: #2 predicted fragment length is 178 bps INFO @ Sat, 11 Dec 2021 15:22:24: #2 alternative fragment length(s) may be 178 bps INFO @ Sat, 11 Dec 2021 15:22:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.20_model.r INFO @ Sat, 11 Dec 2021 15:22:24: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:22:24: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:22:33: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:22:37: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:22:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:22:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434127/SRX7434127.20_summits.bed INFO @ Sat, 11 Dec 2021 15:22:37: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (982 records, 4 fields): 2 millis CompletedMACS2peakCalling