Job ID = 6454238 SRX = SRX193317 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:57:04 prefetch.2.10.7: 1) Downloading 'SRR585050'... 2020-06-21T08:57:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:59:51 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:59:51 prefetch.2.10.7: 1) 'SRR585050' was downloaded successfully Read 22599246 spots for SRR585050/SRR585050.sra Written 22599246 spots for SRR585050/SRR585050.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:38 22599246 reads; of these: 22599246 (100.00%) were unpaired; of these: 2819310 (12.48%) aligned 0 times 15521787 (68.68%) aligned exactly 1 time 4258149 (18.84%) aligned >1 times 87.52% overall alignment rate Time searching: 00:05:38 Overall time: 00:05:38 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 7692981 / 19779936 = 0.3889 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sun, 21 Jun 2020 18:11:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.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 @ Sun, 21 Jun 2020 18:11:14: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:11:14: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:11:20: 1000000 INFO @ Sun, 21 Jun 2020 18:11:26: 2000000 INFO @ Sun, 21 Jun 2020 18:11:31: 3000000 INFO @ Sun, 21 Jun 2020 18:11:37: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sun, 21 Jun 2020 18:11:43: 5000000 INFO @ Sun, 21 Jun 2020 18:11:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.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 @ Sun, 21 Jun 2020 18:11:44: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:11:44: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:11:49: 6000000 INFO @ Sun, 21 Jun 2020 18:11:51: 1000000 INFO @ Sun, 21 Jun 2020 18:11:55: 7000000 INFO @ Sun, 21 Jun 2020 18:11:57: 2000000 INFO @ Sun, 21 Jun 2020 18:12:01: 8000000 INFO @ Sun, 21 Jun 2020 18:12:03: 3000000 INFO @ Sun, 21 Jun 2020 18:12:07: 9000000 INFO @ Sun, 21 Jun 2020 18:12:10: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sun, 21 Jun 2020 18:12:14: 10000000 INFO @ Sun, 21 Jun 2020 18:12:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.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 @ Sun, 21 Jun 2020 18:12:14: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:12:14: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:12:16: 5000000 INFO @ Sun, 21 Jun 2020 18:12:20: 11000000 INFO @ Sun, 21 Jun 2020 18:12:21: 1000000 INFO @ Sun, 21 Jun 2020 18:12:22: 6000000 INFO @ Sun, 21 Jun 2020 18:12:27: 12000000 INFO @ Sun, 21 Jun 2020 18:12:27: 2000000 INFO @ Sun, 21 Jun 2020 18:12:27: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:12:27: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:12:27: #1 total tags in treatment: 12086955 INFO @ Sun, 21 Jun 2020 18:12:27: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:12:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 18:12:28: #1 tags after filtering in treatment: 12086844 INFO @ Sun, 21 Jun 2020 18:12:28: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:12:28: #1 finished! INFO @ Sun, 21 Jun 2020 18:12:28: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:12:28: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:12:29: 7000000 INFO @ Sun, 21 Jun 2020 18:12:29: #2 number of paired peaks: 6120 INFO @ Sun, 21 Jun 2020 18:12:29: start model_add_line... INFO @ Sun, 21 Jun 2020 18:12:29: start X-correlation... INFO @ Sun, 21 Jun 2020 18:12:29: end of X-cor INFO @ Sun, 21 Jun 2020 18:12:29: #2 finished! INFO @ Sun, 21 Jun 2020 18:12:29: #2 predicted fragment length is 203 bps INFO @ Sun, 21 Jun 2020 18:12:29: #2 alternative fragment length(s) may be 203 bps INFO @ Sun, 21 Jun 2020 18:12:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.05_model.r INFO @ Sun, 21 Jun 2020 18:12:29: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:12:29: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:12:34: 3000000 INFO @ Sun, 21 Jun 2020 18:12:35: 8000000 INFO @ Sun, 21 Jun 2020 18:12:40: 4000000 INFO @ Sun, 21 Jun 2020 18:12:42: 9000000 INFO @ Sun, 21 Jun 2020 18:12:47: 5000000 INFO @ Sun, 21 Jun 2020 18:12:48: 10000000 INFO @ Sun, 21 Jun 2020 18:12:53: 6000000 INFO @ Sun, 21 Jun 2020 18:12:55: 11000000 INFO @ Sun, 21 Jun 2020 18:12:59: 7000000 INFO @ Sun, 21 Jun 2020 18:13:01: 12000000 INFO @ Sun, 21 Jun 2020 18:13:02: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:13:02: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:13:02: #1 total tags in treatment: 12086955 INFO @ Sun, 21 Jun 2020 18:13:02: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:13:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 18:13:02: #1 tags after filtering in treatment: 12086844 INFO @ Sun, 21 Jun 2020 18:13:02: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:13:02: #1 finished! INFO @ Sun, 21 Jun 2020 18:13:02: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:13:02: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:13:04: #2 number of paired peaks: 6120 INFO @ Sun, 21 Jun 2020 18:13:04: start model_add_line... INFO @ Sun, 21 Jun 2020 18:13:04: start X-correlation... INFO @ Sun, 21 Jun 2020 18:13:04: end of X-cor INFO @ Sun, 21 Jun 2020 18:13:04: #2 finished! INFO @ Sun, 21 Jun 2020 18:13:04: #2 predicted fragment length is 203 bps INFO @ Sun, 21 Jun 2020 18:13:04: #2 alternative fragment length(s) may be 203 bps INFO @ Sun, 21 Jun 2020 18:13:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.10_model.r INFO @ Sun, 21 Jun 2020 18:13:04: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:13:04: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:13:05: 8000000 INFO @ Sun, 21 Jun 2020 18:13:07: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:13:11: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:13:17: 10000000 INFO @ Sun, 21 Jun 2020 18:13:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:13:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:13:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.05_summits.bed INFO @ Sun, 21 Jun 2020 18:13:23: Done! INFO @ Sun, 21 Jun 2020 18:13:23: 11000000 pass1 - making usageList (424 chroms): 2 millis pass2 - checking and writing primary data (9355 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:13:29: 12000000 INFO @ Sun, 21 Jun 2020 18:13:30: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:13:30: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:13:30: #1 total tags in treatment: 12086955 INFO @ Sun, 21 Jun 2020 18:13:30: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:13:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 18:13:30: #1 tags after filtering in treatment: 12086844 INFO @ Sun, 21 Jun 2020 18:13:30: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:13:30: #1 finished! INFO @ Sun, 21 Jun 2020 18:13:30: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:13:30: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:13:32: #2 number of paired peaks: 6120 INFO @ Sun, 21 Jun 2020 18:13:32: start model_add_line... INFO @ Sun, 21 Jun 2020 18:13:32: start X-correlation... INFO @ Sun, 21 Jun 2020 18:13:32: end of X-cor INFO @ Sun, 21 Jun 2020 18:13:32: #2 finished! INFO @ Sun, 21 Jun 2020 18:13:32: #2 predicted fragment length is 203 bps INFO @ Sun, 21 Jun 2020 18:13:32: #2 alternative fragment length(s) may be 203 bps INFO @ Sun, 21 Jun 2020 18:13:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.20_model.r INFO @ Sun, 21 Jun 2020 18:13:32: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:13:32: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:13:43: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:13:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:13:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:13:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.10_summits.bed INFO @ Sun, 21 Jun 2020 18:13:59: Done! pass1 - making usageList (274 chroms): 2 millis pass2 - checking and writing primary data (7368 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:14:10: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:14:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:14:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:14:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193317/SRX193317.20_summits.bed INFO @ Sun, 21 Jun 2020 18:14:25: Done! pass1 - making usageList (208 chroms): 1 millis pass2 - checking and writing primary data (5543 records, 4 fields): 13 millis CompletedMACS2peakCalling