Job ID = 14166973 SRX = SRX7541131 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 18609198 spots for SRR10871139/SRR10871139.sra Written 18609198 spots for SRR10871139/SRR10871139.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167293 ("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: 00:03:32 18609198 reads; of these: 18609198 (100.00%) were unpaired; of these: 8421284 (45.25%) aligned 0 times 8874402 (47.69%) aligned exactly 1 time 1313512 (7.06%) aligned >1 times 54.75% overall alignment rate Time searching: 00:03:32 Overall time: 00:03:32 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] 3136487 / 10187914 = 0.3079 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 08:22:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.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 08:22:44: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:22:44: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:22:49: 1000000 INFO @ Fri, 10 Dec 2021 08:22:54: 2000000 INFO @ Fri, 10 Dec 2021 08:22:59: 3000000 INFO @ Fri, 10 Dec 2021 08:23:04: 4000000 INFO @ Fri, 10 Dec 2021 08:23:09: 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 @ Fri, 10 Dec 2021 08:23:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.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 08:23:14: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:23:14: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:23:14: 6000000 INFO @ Fri, 10 Dec 2021 08:23:20: 7000000 INFO @ Fri, 10 Dec 2021 08:23:20: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 08:23:20: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 08:23:20: #1 total tags in treatment: 7051427 INFO @ Fri, 10 Dec 2021 08:23:20: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:23:20: #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 08:23:20: 1000000 INFO @ Fri, 10 Dec 2021 08:23:20: #1 tags after filtering in treatment: 7051427 INFO @ Fri, 10 Dec 2021 08:23:20: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:23:20: #1 finished! INFO @ Fri, 10 Dec 2021 08:23:20: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:23:20: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:23:21: #2 number of paired peaks: 4577 INFO @ Fri, 10 Dec 2021 08:23:21: start model_add_line... INFO @ Fri, 10 Dec 2021 08:23:21: start X-correlation... INFO @ Fri, 10 Dec 2021 08:23:21: end of X-cor INFO @ Fri, 10 Dec 2021 08:23:21: #2 finished! INFO @ Fri, 10 Dec 2021 08:23:21: #2 predicted fragment length is 234 bps INFO @ Fri, 10 Dec 2021 08:23:21: #2 alternative fragment length(s) may be 234 bps INFO @ Fri, 10 Dec 2021 08:23:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.05_model.r INFO @ Fri, 10 Dec 2021 08:23:21: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:23:21: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 08:23:26: 2000000 INFO @ Fri, 10 Dec 2021 08:23:32: 3000000 INFO @ Fri, 10 Dec 2021 08:23:37: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:23:37: 4000000 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 08:23:43: 5000000 INFO @ Fri, 10 Dec 2021 08:23:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.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 08:23:44: #1 read tag files... INFO @ Fri, 10 Dec 2021 08:23:44: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 08:23:45: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.05_peaks.xls INFO @ Fri, 10 Dec 2021 08:23:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:23:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.05_summits.bed INFO @ Fri, 10 Dec 2021 08:23:45: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (6683 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 08:23:49: 6000000 INFO @ Fri, 10 Dec 2021 08:23:50: 1000000 INFO @ Fri, 10 Dec 2021 08:23:55: 7000000 INFO @ Fri, 10 Dec 2021 08:23:56: 2000000 INFO @ Fri, 10 Dec 2021 08:23:56: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 08:23:56: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 08:23:56: #1 total tags in treatment: 7051427 INFO @ Fri, 10 Dec 2021 08:23:56: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:23:56: #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 08:23:56: #1 tags after filtering in treatment: 7051427 INFO @ Fri, 10 Dec 2021 08:23:56: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:23:56: #1 finished! INFO @ Fri, 10 Dec 2021 08:23:56: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:23:56: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:23:57: #2 number of paired peaks: 4577 INFO @ Fri, 10 Dec 2021 08:23:57: start model_add_line... INFO @ Fri, 10 Dec 2021 08:23:57: start X-correlation... INFO @ Fri, 10 Dec 2021 08:23:57: end of X-cor INFO @ Fri, 10 Dec 2021 08:23:57: #2 finished! INFO @ Fri, 10 Dec 2021 08:23:57: #2 predicted fragment length is 234 bps INFO @ Fri, 10 Dec 2021 08:23:57: #2 alternative fragment length(s) may be 234 bps INFO @ Fri, 10 Dec 2021 08:23:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.10_model.r INFO @ Fri, 10 Dec 2021 08:23:57: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:23:57: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 08:24:02: 3000000 INFO @ Fri, 10 Dec 2021 08:24:07: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 08:24:13: 5000000 INFO @ Fri, 10 Dec 2021 08:24:14: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:24:19: 6000000 INFO @ Fri, 10 Dec 2021 08:24:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.10_peaks.xls INFO @ Fri, 10 Dec 2021 08:24:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:24:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.10_summits.bed INFO @ Fri, 10 Dec 2021 08:24:22: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (5137 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 08:24:25: 7000000 INFO @ Fri, 10 Dec 2021 08:24:25: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 08:24:25: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 08:24:25: #1 total tags in treatment: 7051427 INFO @ Fri, 10 Dec 2021 08:24:25: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 08:24:25: #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 08:24:25: #1 tags after filtering in treatment: 7051427 INFO @ Fri, 10 Dec 2021 08:24:25: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 08:24:25: #1 finished! INFO @ Fri, 10 Dec 2021 08:24:25: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 08:24:25: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 08:24:26: #2 number of paired peaks: 4577 INFO @ Fri, 10 Dec 2021 08:24:26: start model_add_line... INFO @ Fri, 10 Dec 2021 08:24:26: start X-correlation... INFO @ Fri, 10 Dec 2021 08:24:26: end of X-cor INFO @ Fri, 10 Dec 2021 08:24:26: #2 finished! INFO @ Fri, 10 Dec 2021 08:24:26: #2 predicted fragment length is 234 bps INFO @ Fri, 10 Dec 2021 08:24:26: #2 alternative fragment length(s) may be 234 bps INFO @ Fri, 10 Dec 2021 08:24:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.20_model.r INFO @ Fri, 10 Dec 2021 08:24:26: #3 Call peaks... INFO @ Fri, 10 Dec 2021 08:24:26: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 08:24:42: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 08:24:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.20_peaks.xls INFO @ Fri, 10 Dec 2021 08:24:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 08:24:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7541131/SRX7541131.20_summits.bed INFO @ Fri, 10 Dec 2021 08:24:50: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (3666 records, 4 fields): 5 millis CompletedMACS2peakCalling