Job ID = 14170647 SRX = SRX9434469 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 24908941 spots for SRR12982867/SRR12982867.sra Written 24908941 spots for SRR12982867/SRR12982867.sra fastq に変換しました。 bowtie でマッピング中... Your job 14171078 ("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: 00:05:39 24908941 reads; of these: 24908941 (100.00%) were unpaired; of these: 495737 (1.99%) aligned 0 times 20400835 (81.90%) aligned exactly 1 time 4012369 (16.11%) aligned >1 times 98.01% overall alignment rate Time searching: 00:05:39 Overall time: 00:05:39 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 12 files... [bam_rmdupse_core] 9896916 / 24413204 = 0.4054 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 07:56:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.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 07:56:53: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:56:53: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:56:58: 1000000 INFO @ Sat, 11 Dec 2021 07:57:04: 2000000 INFO @ Sat, 11 Dec 2021 07:57:10: 3000000 INFO @ Sat, 11 Dec 2021 07:57:16: 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 07:57:22: 5000000 INFO @ Sat, 11 Dec 2021 07:57:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.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 07:57:23: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:57:23: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:57:28: 6000000 INFO @ Sat, 11 Dec 2021 07:57:28: 1000000 INFO @ Sat, 11 Dec 2021 07:57:34: 7000000 INFO @ Sat, 11 Dec 2021 07:57:34: 2000000 INFO @ Sat, 11 Dec 2021 07:57:40: 3000000 INFO @ Sat, 11 Dec 2021 07:57:40: 8000000 INFO @ Sat, 11 Dec 2021 07:57:45: 4000000 INFO @ Sat, 11 Dec 2021 07:57:46: 9000000 INFO @ Sat, 11 Dec 2021 07:57:51: 5000000 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 07:57:53: 10000000 INFO @ Sat, 11 Dec 2021 07:57:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.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 07:57:53: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:57:53: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:57:56: 6000000 INFO @ Sat, 11 Dec 2021 07:57:59: 11000000 INFO @ Sat, 11 Dec 2021 07:57:59: 1000000 INFO @ Sat, 11 Dec 2021 07:58:02: 7000000 INFO @ Sat, 11 Dec 2021 07:58:05: 12000000 INFO @ Sat, 11 Dec 2021 07:58:05: 2000000 INFO @ Sat, 11 Dec 2021 07:58:08: 8000000 INFO @ Sat, 11 Dec 2021 07:58:11: 13000000 INFO @ Sat, 11 Dec 2021 07:58:12: 3000000 INFO @ Sat, 11 Dec 2021 07:58:13: 9000000 INFO @ Sat, 11 Dec 2021 07:58:17: 14000000 INFO @ Sat, 11 Dec 2021 07:58:18: 4000000 INFO @ Sat, 11 Dec 2021 07:58:19: 10000000 INFO @ Sat, 11 Dec 2021 07:58:21: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 07:58:21: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 07:58:21: #1 total tags in treatment: 14516288 INFO @ Sat, 11 Dec 2021 07:58:21: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:58:21: #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 07:58:21: #1 tags after filtering in treatment: 14516288 INFO @ Sat, 11 Dec 2021 07:58:21: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 07:58:21: #1 finished! INFO @ Sat, 11 Dec 2021 07:58:21: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:58:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:58:23: #2 number of paired peaks: 13944 INFO @ Sat, 11 Dec 2021 07:58:23: start model_add_line... INFO @ Sat, 11 Dec 2021 07:58:23: start X-correlation... INFO @ Sat, 11 Dec 2021 07:58:23: end of X-cor INFO @ Sat, 11 Dec 2021 07:58:23: #2 finished! INFO @ Sat, 11 Dec 2021 07:58:23: #2 predicted fragment length is 129 bps INFO @ Sat, 11 Dec 2021 07:58:23: #2 alternative fragment length(s) may be 129 bps INFO @ Sat, 11 Dec 2021 07:58:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.05_model.r INFO @ Sat, 11 Dec 2021 07:58:23: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:58:23: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:58:24: 5000000 INFO @ Sat, 11 Dec 2021 07:58:25: 11000000 INFO @ Sat, 11 Dec 2021 07:58:30: 6000000 INFO @ Sat, 11 Dec 2021 07:58:30: 12000000 INFO @ Sat, 11 Dec 2021 07:58:36: 13000000 INFO @ Sat, 11 Dec 2021 07:58:36: 7000000 INFO @ Sat, 11 Dec 2021 07:58:42: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 07:58:43: 8000000 INFO @ Sat, 11 Dec 2021 07:58:45: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 07:58:45: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 07:58:45: #1 total tags in treatment: 14516288 INFO @ Sat, 11 Dec 2021 07:58:45: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:58:45: #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 07:58:45: #1 tags after filtering in treatment: 14516288 INFO @ Sat, 11 Dec 2021 07:58:45: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 07:58:45: #1 finished! INFO @ Sat, 11 Dec 2021 07:58:45: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:58:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:58:47: #2 number of paired peaks: 13944 INFO @ Sat, 11 Dec 2021 07:58:47: start model_add_line... INFO @ Sat, 11 Dec 2021 07:58:47: start X-correlation... INFO @ Sat, 11 Dec 2021 07:58:47: end of X-cor INFO @ Sat, 11 Dec 2021 07:58:47: #2 finished! INFO @ Sat, 11 Dec 2021 07:58:47: #2 predicted fragment length is 129 bps INFO @ Sat, 11 Dec 2021 07:58:47: #2 alternative fragment length(s) may be 129 bps INFO @ Sat, 11 Dec 2021 07:58:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.10_model.r INFO @ Sat, 11 Dec 2021 07:58:47: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:58:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:58:49: 9000000 INFO @ Sat, 11 Dec 2021 07:58:55: 10000000 INFO @ Sat, 11 Dec 2021 07:58:55: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:59:01: 11000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 07:59:07: 12000000 INFO @ Sat, 11 Dec 2021 07:59:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.05_peaks.xls INFO @ Sat, 11 Dec 2021 07:59:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:59:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.05_summits.bed INFO @ Sat, 11 Dec 2021 07:59:09: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (10741 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 07:59:12: 13000000 INFO @ Sat, 11 Dec 2021 07:59:18: 14000000 INFO @ Sat, 11 Dec 2021 07:59:19: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:59:21: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 07:59:21: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 07:59:21: #1 total tags in treatment: 14516288 INFO @ Sat, 11 Dec 2021 07:59:21: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:59:21: #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 07:59:21: #1 tags after filtering in treatment: 14516288 INFO @ Sat, 11 Dec 2021 07:59:21: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 07:59:21: #1 finished! INFO @ Sat, 11 Dec 2021 07:59:21: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:59:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:59:23: #2 number of paired peaks: 13944 INFO @ Sat, 11 Dec 2021 07:59:23: start model_add_line... INFO @ Sat, 11 Dec 2021 07:59:24: start X-correlation... INFO @ Sat, 11 Dec 2021 07:59:24: end of X-cor INFO @ Sat, 11 Dec 2021 07:59:24: #2 finished! INFO @ Sat, 11 Dec 2021 07:59:24: #2 predicted fragment length is 129 bps INFO @ Sat, 11 Dec 2021 07:59:24: #2 alternative fragment length(s) may be 129 bps INFO @ Sat, 11 Dec 2021 07:59:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.20_model.r INFO @ Sat, 11 Dec 2021 07:59:24: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:59:24: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:59:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.10_peaks.xls INFO @ Sat, 11 Dec 2021 07:59:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:59:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.10_summits.bed INFO @ Sat, 11 Dec 2021 07:59:33: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (9514 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 07:59:55: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:00:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.20_peaks.xls INFO @ Sat, 11 Dec 2021 08:00:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:00:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434469/SRX9434469.20_summits.bed INFO @ Sat, 11 Dec 2021 08:00:09: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (8000 records, 4 fields): 9 millis CompletedMACS2peakCalling