Job ID = 14172400 SRX = SRX7434122 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 16207246 spots for SRR10759888/SRR10759888.sra Written 16207246 spots for SRR10759888/SRR10759888.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172842 ("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: 00:04:26 16207246 reads; of these: 16207246 (100.00%) were unpaired; of these: 3477139 (21.45%) aligned 0 times 9211440 (56.84%) aligned exactly 1 time 3518667 (21.71%) aligned >1 times 78.55% overall alignment rate Time searching: 00:04:26 Overall time: 00:04:26 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] 4798484 / 12730107 = 0.3769 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 15:24:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.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 15:24:14: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:24:14: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:24:20: 1000000 INFO @ Sat, 11 Dec 2021 15:24:26: 2000000 INFO @ Sat, 11 Dec 2021 15:24:31: 3000000 INFO @ Sat, 11 Dec 2021 15:24:37: 4000000 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 15:24:43: 5000000 INFO @ Sat, 11 Dec 2021 15:24:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.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 15:24:44: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:24:44: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:24:49: 6000000 INFO @ Sat, 11 Dec 2021 15:24:51: 1000000 INFO @ Sat, 11 Dec 2021 15:24:56: 7000000 INFO @ Sat, 11 Dec 2021 15:24:57: 2000000 INFO @ Sat, 11 Dec 2021 15:25:02: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:25:02: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:25:02: #1 total tags in treatment: 7931623 INFO @ Sat, 11 Dec 2021 15:25:02: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:25:02: #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 15:25:02: #1 tags after filtering in treatment: 7931623 INFO @ Sat, 11 Dec 2021 15:25:02: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:25:02: #1 finished! INFO @ Sat, 11 Dec 2021 15:25:02: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:25:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:25:03: #2 number of paired peaks: 1232 INFO @ Sat, 11 Dec 2021 15:25:03: start model_add_line... INFO @ Sat, 11 Dec 2021 15:25:03: start X-correlation... INFO @ Sat, 11 Dec 2021 15:25:03: end of X-cor INFO @ Sat, 11 Dec 2021 15:25:03: #2 finished! INFO @ Sat, 11 Dec 2021 15:25:03: #2 predicted fragment length is 174 bps INFO @ Sat, 11 Dec 2021 15:25:03: #2 alternative fragment length(s) may be 174 bps INFO @ Sat, 11 Dec 2021 15:25:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.05_model.r INFO @ Sat, 11 Dec 2021 15:25:03: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:25:03: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:25:03: 3000000 INFO @ Sat, 11 Dec 2021 15:25:10: 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 @ Sat, 11 Dec 2021 15:25:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.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 15:25:14: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:25:14: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:25:16: 5000000 INFO @ Sat, 11 Dec 2021 15:25:21: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:25:21: 1000000 INFO @ Sat, 11 Dec 2021 15:25:22: 6000000 INFO @ Sat, 11 Dec 2021 15:25:27: 2000000 INFO @ Sat, 11 Dec 2021 15:25:29: 7000000 INFO @ Sat, 11 Dec 2021 15:25:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:25:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:25:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.05_summits.bed INFO @ Sat, 11 Dec 2021 15:25:29: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (3104 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:25:34: 3000000 INFO @ Sat, 11 Dec 2021 15:25:35: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:25:35: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:25:35: #1 total tags in treatment: 7931623 INFO @ Sat, 11 Dec 2021 15:25:35: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:25:35: #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 15:25:35: #1 tags after filtering in treatment: 7931623 INFO @ Sat, 11 Dec 2021 15:25:35: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:25:35: #1 finished! INFO @ Sat, 11 Dec 2021 15:25:35: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:25:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:25:36: #2 number of paired peaks: 1232 INFO @ Sat, 11 Dec 2021 15:25:36: start model_add_line... INFO @ Sat, 11 Dec 2021 15:25:36: start X-correlation... INFO @ Sat, 11 Dec 2021 15:25:36: end of X-cor INFO @ Sat, 11 Dec 2021 15:25:36: #2 finished! INFO @ Sat, 11 Dec 2021 15:25:36: #2 predicted fragment length is 174 bps INFO @ Sat, 11 Dec 2021 15:25:36: #2 alternative fragment length(s) may be 174 bps INFO @ Sat, 11 Dec 2021 15:25:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.10_model.r INFO @ Sat, 11 Dec 2021 15:25:36: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:25:36: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:25:40: 4000000 INFO @ Sat, 11 Dec 2021 15:25:47: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:25:53: 6000000 INFO @ Sat, 11 Dec 2021 15:25:53: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:26:00: 7000000 INFO @ Sat, 11 Dec 2021 15:26:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:26:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:26:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.10_summits.bed INFO @ Sat, 11 Dec 2021 15:26:02: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (2108 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:26:06: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:26:06: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:26:06: #1 total tags in treatment: 7931623 INFO @ Sat, 11 Dec 2021 15:26:06: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:26:06: #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 15:26:06: #1 tags after filtering in treatment: 7931623 INFO @ Sat, 11 Dec 2021 15:26:06: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:26:06: #1 finished! INFO @ Sat, 11 Dec 2021 15:26:06: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:26:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:26:06: #2 number of paired peaks: 1232 INFO @ Sat, 11 Dec 2021 15:26:06: start model_add_line... INFO @ Sat, 11 Dec 2021 15:26:06: start X-correlation... INFO @ Sat, 11 Dec 2021 15:26:06: end of X-cor INFO @ Sat, 11 Dec 2021 15:26:06: #2 finished! INFO @ Sat, 11 Dec 2021 15:26:06: #2 predicted fragment length is 174 bps INFO @ Sat, 11 Dec 2021 15:26:06: #2 alternative fragment length(s) may be 174 bps INFO @ Sat, 11 Dec 2021 15:26:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.20_model.r INFO @ Sat, 11 Dec 2021 15:26:06: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:26:06: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:26:24: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:26:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:26:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:26:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434122/SRX7434122.20_summits.bed INFO @ Sat, 11 Dec 2021 15:26:33: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (1366 records, 4 fields): 393 millis CompletedMACS2peakCalling