Job ID = 12266606 SRX = SRX7282933 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 3434888 spots for SRR10603292/SRR10603292.sra Written 3434888 spots for SRR10603292/SRR10603292.sra fastq に変換しました。 bowtie でマッピング中... Your job 12266748 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:00:41 3434888 reads; of these: 3434888 (100.00%) were unpaired; of these: 551188 (16.05%) aligned 0 times 2555014 (74.38%) aligned exactly 1 time 328686 (9.57%) aligned >1 times 83.95% overall alignment rate Time searching: 00:00:42 Overall time: 00:00:42 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] 822383 / 2883700 = 0.2852 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 09:04:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.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, 03 Apr 2021 09:04:45: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:04:45: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:04:51: 1000000 INFO @ Sat, 03 Apr 2021 09:04:57: 2000000 INFO @ Sat, 03 Apr 2021 09:04:57: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:04:57: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:04:57: #1 total tags in treatment: 2061317 INFO @ Sat, 03 Apr 2021 09:04:57: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:04:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 09:04:57: #1 tags after filtering in treatment: 2061317 INFO @ Sat, 03 Apr 2021 09:04:57: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:04:57: #1 finished! INFO @ Sat, 03 Apr 2021 09:04:57: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:04:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:04:57: #2 number of paired peaks: 8097 INFO @ Sat, 03 Apr 2021 09:04:57: start model_add_line... INFO @ Sat, 03 Apr 2021 09:04:57: start X-correlation... INFO @ Sat, 03 Apr 2021 09:04:57: end of X-cor INFO @ Sat, 03 Apr 2021 09:04:57: #2 finished! INFO @ Sat, 03 Apr 2021 09:04:57: #2 predicted fragment length is 101 bps INFO @ Sat, 03 Apr 2021 09:04:57: #2 alternative fragment length(s) may be 101 bps INFO @ Sat, 03 Apr 2021 09:04:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.05_model.r INFO @ Sat, 03 Apr 2021 09:04:57: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:04:57: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:05:02: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 09:05:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.05_peaks.xls INFO @ Sat, 03 Apr 2021 09:05:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:05:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.05_summits.bed INFO @ Sat, 03 Apr 2021 09:05:05: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (11661 records, 4 fields): 15 millis CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 09:05:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.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, 03 Apr 2021 09:05:15: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:05:15: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:05:22: 1000000 INFO @ Sat, 03 Apr 2021 09:05:30: 2000000 INFO @ Sat, 03 Apr 2021 09:05:30: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:05:30: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:05:30: #1 total tags in treatment: 2061317 INFO @ Sat, 03 Apr 2021 09:05:30: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:05:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 09:05:30: #1 tags after filtering in treatment: 2061317 INFO @ Sat, 03 Apr 2021 09:05:30: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:05:30: #1 finished! INFO @ Sat, 03 Apr 2021 09:05:30: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:05:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:05:31: #2 number of paired peaks: 8097 INFO @ Sat, 03 Apr 2021 09:05:31: start model_add_line... INFO @ Sat, 03 Apr 2021 09:05:31: start X-correlation... INFO @ Sat, 03 Apr 2021 09:05:31: end of X-cor INFO @ Sat, 03 Apr 2021 09:05:31: #2 finished! INFO @ Sat, 03 Apr 2021 09:05:31: #2 predicted fragment length is 101 bps INFO @ Sat, 03 Apr 2021 09:05:31: #2 alternative fragment length(s) may be 101 bps INFO @ Sat, 03 Apr 2021 09:05:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.10_model.r INFO @ Sat, 03 Apr 2021 09:05:31: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:05:31: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:05:36: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 09:05:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.10_peaks.xls INFO @ Sat, 03 Apr 2021 09:05:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:05:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.10_summits.bed INFO @ Sat, 03 Apr 2021 09:05:38: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (6930 records, 4 fields): 10 millis CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 09:05:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.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, 03 Apr 2021 09:05:45: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:05:45: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:05:52: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 09:05:58: 2000000 INFO @ Sat, 03 Apr 2021 09:05:58: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:05:58: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:05:58: #1 total tags in treatment: 2061317 INFO @ Sat, 03 Apr 2021 09:05:58: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:05:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 09:05:58: #1 tags after filtering in treatment: 2061317 INFO @ Sat, 03 Apr 2021 09:05:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:05:58: #1 finished! INFO @ Sat, 03 Apr 2021 09:05:58: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:05:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:05:59: #2 number of paired peaks: 8097 INFO @ Sat, 03 Apr 2021 09:05:59: start model_add_line... INFO @ Sat, 03 Apr 2021 09:05:59: start X-correlation... INFO @ Sat, 03 Apr 2021 09:05:59: end of X-cor INFO @ Sat, 03 Apr 2021 09:05:59: #2 finished! INFO @ Sat, 03 Apr 2021 09:05:59: #2 predicted fragment length is 101 bps INFO @ Sat, 03 Apr 2021 09:05:59: #2 alternative fragment length(s) may be 101 bps INFO @ Sat, 03 Apr 2021 09:05:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.20_model.r INFO @ Sat, 03 Apr 2021 09:05:59: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:05:59: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 09:06:04: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 09:06:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.20_peaks.xls INFO @ Sat, 03 Apr 2021 09:06:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:06:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282933/SRX7282933.20_summits.bed INFO @ Sat, 03 Apr 2021 09:06:06: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (2603 records, 4 fields): 5 millis CompletedMACS2peakCalling