Job ID = 14170549 SRX = SRX9720885 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 9630859 spots for SRR13291875/SRR13291875.sra Written 9630859 spots for SRR13291875/SRR13291875.sra fastq に変換しました。 bowtie でマッピング中... Your job 14170947 ("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: 00:02:57 9630859 reads; of these: 9630859 (100.00%) were unpaired; of these: 1421017 (14.75%) aligned 0 times 5432799 (56.41%) aligned exactly 1 time 2777043 (28.83%) aligned >1 times 85.25% overall alignment rate Time searching: 00:02:58 Overall time: 00:02:58 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] 1058797 / 8209842 = 0.1290 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 07:16:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.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 07:16:02: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:16:02: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:16:09: 1000000 INFO @ Sat, 11 Dec 2021 07:16:15: 2000000 INFO @ Sat, 11 Dec 2021 07:16:22: 3000000 INFO @ Sat, 11 Dec 2021 07:16:29: 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 07:16:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.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 07:16:32: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:16:32: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:16:35: 5000000 INFO @ Sat, 11 Dec 2021 07:16:39: 1000000 INFO @ Sat, 11 Dec 2021 07:16:43: 6000000 INFO @ Sat, 11 Dec 2021 07:16:47: 2000000 INFO @ Sat, 11 Dec 2021 07:16:50: 7000000 INFO @ Sat, 11 Dec 2021 07:16:51: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 07:16:51: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 07:16:51: #1 total tags in treatment: 7151045 INFO @ Sat, 11 Dec 2021 07:16:51: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:16:51: #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 07:16:51: #1 tags after filtering in treatment: 7151045 INFO @ Sat, 11 Dec 2021 07:16:51: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 07:16:51: #1 finished! INFO @ Sat, 11 Dec 2021 07:16:51: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:16:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:16:51: #2 number of paired peaks: 1231 INFO @ Sat, 11 Dec 2021 07:16:51: start model_add_line... INFO @ Sat, 11 Dec 2021 07:16:52: start X-correlation... INFO @ Sat, 11 Dec 2021 07:16:52: end of X-cor INFO @ Sat, 11 Dec 2021 07:16:52: #2 finished! INFO @ Sat, 11 Dec 2021 07:16:52: #2 predicted fragment length is 181 bps INFO @ Sat, 11 Dec 2021 07:16:52: #2 alternative fragment length(s) may be 181 bps INFO @ Sat, 11 Dec 2021 07:16:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.05_model.r INFO @ Sat, 11 Dec 2021 07:16:52: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:16:52: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:16:54: 3000000 BedGraph に変換中... INFO @ Sat, 11 Dec 2021 07:17:00: 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 07:17:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.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 07:17:02: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:17:02: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:17:07: 5000000 INFO @ Sat, 11 Dec 2021 07:17:08: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:17:09: 1000000 INFO @ Sat, 11 Dec 2021 07:17:14: 6000000 INFO @ Sat, 11 Dec 2021 07:17:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.05_peaks.xls INFO @ Sat, 11 Dec 2021 07:17:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:17:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.05_summits.bed INFO @ Sat, 11 Dec 2021 07:17:15: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (4127 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 07:17:17: 2000000 INFO @ Sat, 11 Dec 2021 07:17:21: 7000000 INFO @ Sat, 11 Dec 2021 07:17:23: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 07:17:23: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 07:17:23: #1 total tags in treatment: 7151045 INFO @ Sat, 11 Dec 2021 07:17:23: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:17:23: #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 07:17:23: #1 tags after filtering in treatment: 7151045 INFO @ Sat, 11 Dec 2021 07:17:23: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 07:17:23: #1 finished! INFO @ Sat, 11 Dec 2021 07:17:23: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:17:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:17:23: #2 number of paired peaks: 1231 INFO @ Sat, 11 Dec 2021 07:17:23: start model_add_line... INFO @ Sat, 11 Dec 2021 07:17:23: start X-correlation... INFO @ Sat, 11 Dec 2021 07:17:23: end of X-cor INFO @ Sat, 11 Dec 2021 07:17:23: #2 finished! INFO @ Sat, 11 Dec 2021 07:17:23: #2 predicted fragment length is 181 bps INFO @ Sat, 11 Dec 2021 07:17:23: #2 alternative fragment length(s) may be 181 bps INFO @ Sat, 11 Dec 2021 07:17:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.10_model.r INFO @ Sat, 11 Dec 2021 07:17:23: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:17:23: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:17:24: 3000000 INFO @ Sat, 11 Dec 2021 07:17:30: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 07:17:37: 5000000 INFO @ Sat, 11 Dec 2021 07:17:39: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:17:44: 6000000 INFO @ Sat, 11 Dec 2021 07:17:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.10_peaks.xls INFO @ Sat, 11 Dec 2021 07:17:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:17:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.10_summits.bed INFO @ Sat, 11 Dec 2021 07:17:47: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (2687 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 07:17:50: 7000000 INFO @ Sat, 11 Dec 2021 07:17:51: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 07:17:51: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 07:17:51: #1 total tags in treatment: 7151045 INFO @ Sat, 11 Dec 2021 07:17:51: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:17:51: #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 07:17:52: #1 tags after filtering in treatment: 7151045 INFO @ Sat, 11 Dec 2021 07:17:52: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 07:17:52: #1 finished! INFO @ Sat, 11 Dec 2021 07:17:52: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:17:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:17:52: #2 number of paired peaks: 1231 INFO @ Sat, 11 Dec 2021 07:17:52: start model_add_line... INFO @ Sat, 11 Dec 2021 07:17:52: start X-correlation... INFO @ Sat, 11 Dec 2021 07:17:52: end of X-cor INFO @ Sat, 11 Dec 2021 07:17:52: #2 finished! INFO @ Sat, 11 Dec 2021 07:17:52: #2 predicted fragment length is 181 bps INFO @ Sat, 11 Dec 2021 07:17:52: #2 alternative fragment length(s) may be 181 bps INFO @ Sat, 11 Dec 2021 07:17:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.20_model.r INFO @ Sat, 11 Dec 2021 07:17:52: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:17:52: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 07:18:08: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:18:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.20_peaks.xls INFO @ Sat, 11 Dec 2021 07:18:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:18:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9720885/SRX9720885.20_summits.bed INFO @ Sat, 11 Dec 2021 07:18:16: Done! pass1 - making usageList (14 chroms): 0 millis pass2 - checking and writing primary data (1448 records, 4 fields): 4 millis CompletedMACS2peakCalling