Job ID = 6452279 SRX = ERX3548051 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T07:25:35 prefetch.2.10.7: 1) Downloading 'ERR3528407'... 2020-06-21T07:25:35 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:26:18 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:26:18 prefetch.2.10.7: 'ERR3528407' is valid 2020-06-21T07:26:18 prefetch.2.10.7: 1) 'ERR3528407' was downloaded successfully Read 4104275 spots for ERR3528407/ERR3528407.sra Written 4104275 spots for ERR3528407/ERR3528407.sra 2020-06-21T07:26:47 prefetch.2.10.7: 1) Downloading 'ERR3528408'... 2020-06-21T07:26:47 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:27:23 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:27:23 prefetch.2.10.7: 'ERR3528408' is valid 2020-06-21T07:27:23 prefetch.2.10.7: 1) 'ERR3528408' was downloaded successfully Read 4062160 spots for ERR3528408/ERR3528408.sra Written 4062160 spots for ERR3528408/ERR3528408.sra 2020-06-21T07:27:52 prefetch.2.10.7: 1) Downloading 'ERR3528409'... 2020-06-21T07:27:52 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:28:27 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:28:27 prefetch.2.10.7: 'ERR3528409' is valid 2020-06-21T07:28:27 prefetch.2.10.7: 1) 'ERR3528409' was downloaded successfully Read 4121144 spots for ERR3528409/ERR3528409.sra Written 4121144 spots for ERR3528409/ERR3528409.sra 2020-06-21T07:28:56 prefetch.2.10.7: 1) Downloading 'ERR3528410'... 2020-06-21T07:28:56 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:29:58 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:29:58 prefetch.2.10.7: 'ERR3528410' is valid 2020-06-21T07:29:58 prefetch.2.10.7: 1) 'ERR3528410' was downloaded successfully Read 4042671 spots for ERR3528410/ERR3528410.sra Written 4042671 spots for ERR3528410/ERR3528410.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: 00:03:38 16330250 reads; of these: 16330250 (100.00%) were unpaired; of these: 4166590 (25.51%) aligned 0 times 9006017 (55.15%) aligned exactly 1 time 3157643 (19.34%) aligned >1 times 74.49% overall alignment rate Time searching: 00:03:38 Overall time: 00:03:38 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 8 files... [bam_rmdupse_core] 5731500 / 12163660 = 0.4712 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 16:37:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.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 16:37:12: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:37:12: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:37:18: 1000000 INFO @ Sun, 21 Jun 2020 16:37:24: 2000000 INFO @ Sun, 21 Jun 2020 16:37:30: 3000000 INFO @ Sun, 21 Jun 2020 16:37:36: 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 16:37:42: 5000000 INFO @ Sun, 21 Jun 2020 16:37:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.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 16:37:42: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:37:42: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:37:49: 1000000 INFO @ Sun, 21 Jun 2020 16:37:49: 6000000 INFO @ Sun, 21 Jun 2020 16:37:52: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 16:37:52: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 16:37:52: #1 total tags in treatment: 6432160 INFO @ Sun, 21 Jun 2020 16:37:52: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:37:52: #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 16:37:52: #1 tags after filtering in treatment: 6432059 INFO @ Sun, 21 Jun 2020 16:37:52: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:37:52: #1 finished! INFO @ Sun, 21 Jun 2020 16:37:52: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:37:52: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:37:53: #2 number of paired peaks: 3771 INFO @ Sun, 21 Jun 2020 16:37:53: start model_add_line... INFO @ Sun, 21 Jun 2020 16:37:53: start X-correlation... INFO @ Sun, 21 Jun 2020 16:37:53: end of X-cor INFO @ Sun, 21 Jun 2020 16:37:53: #2 finished! INFO @ Sun, 21 Jun 2020 16:37:53: #2 predicted fragment length is 195 bps INFO @ Sun, 21 Jun 2020 16:37:53: #2 alternative fragment length(s) may be 195 bps INFO @ Sun, 21 Jun 2020 16:37:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.05_model.r INFO @ Sun, 21 Jun 2020 16:37:53: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:37:53: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 16:37:55: 2000000 INFO @ Sun, 21 Jun 2020 16:38:00: 3000000 INFO @ Sun, 21 Jun 2020 16:38:06: 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 16:38:10: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:38:12: 5000000 INFO @ Sun, 21 Jun 2020 16:38:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.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 16:38:12: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:38:12: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:38:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.05_peaks.xls INFO @ Sun, 21 Jun 2020 16:38:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:38:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.05_summits.bed INFO @ Sun, 21 Jun 2020 16:38:18: Done! pass1 - making usageList (616 chroms): 3 millis pass2 - checking and writing primary data (7687 records, 4 fields): 42 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 16:38:18: 1000000 INFO @ Sun, 21 Jun 2020 16:38:19: 6000000 INFO @ Sun, 21 Jun 2020 16:38:22: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 16:38:22: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 16:38:22: #1 total tags in treatment: 6432160 INFO @ Sun, 21 Jun 2020 16:38:22: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:38:22: #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 16:38:22: #1 tags after filtering in treatment: 6432059 INFO @ Sun, 21 Jun 2020 16:38:22: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:38:22: #1 finished! INFO @ Sun, 21 Jun 2020 16:38:22: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:38:22: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:38:23: #2 number of paired peaks: 3771 INFO @ Sun, 21 Jun 2020 16:38:23: start model_add_line... INFO @ Sun, 21 Jun 2020 16:38:23: start X-correlation... INFO @ Sun, 21 Jun 2020 16:38:23: end of X-cor INFO @ Sun, 21 Jun 2020 16:38:23: #2 finished! INFO @ Sun, 21 Jun 2020 16:38:23: #2 predicted fragment length is 195 bps INFO @ Sun, 21 Jun 2020 16:38:23: #2 alternative fragment length(s) may be 195 bps INFO @ Sun, 21 Jun 2020 16:38:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.10_model.r INFO @ Sun, 21 Jun 2020 16:38:23: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:38:23: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 16:38:24: 2000000 INFO @ Sun, 21 Jun 2020 16:38:30: 3000000 INFO @ Sun, 21 Jun 2020 16:38:35: 4000000 INFO @ Sun, 21 Jun 2020 16:38:40: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:38:41: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 16:38:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.10_peaks.xls INFO @ Sun, 21 Jun 2020 16:38:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:38:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.10_summits.bed INFO @ Sun, 21 Jun 2020 16:38:48: 6000000 INFO @ Sun, 21 Jun 2020 16:38:48: Done! pass1 - making usageList (487 chroms): 2 millis pass2 - checking and writing primary data (4864 records, 4 fields): 32 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 16:38:50: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 16:38:50: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 16:38:50: #1 total tags in treatment: 6432160 INFO @ Sun, 21 Jun 2020 16:38:50: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:38:50: #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 16:38:51: #1 tags after filtering in treatment: 6432059 INFO @ Sun, 21 Jun 2020 16:38:51: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:38:51: #1 finished! INFO @ Sun, 21 Jun 2020 16:38:51: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:38:51: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:38:52: #2 number of paired peaks: 3771 INFO @ Sun, 21 Jun 2020 16:38:52: start model_add_line... INFO @ Sun, 21 Jun 2020 16:38:52: start X-correlation... INFO @ Sun, 21 Jun 2020 16:38:52: end of X-cor INFO @ Sun, 21 Jun 2020 16:38:52: #2 finished! INFO @ Sun, 21 Jun 2020 16:38:52: #2 predicted fragment length is 195 bps INFO @ Sun, 21 Jun 2020 16:38:52: #2 alternative fragment length(s) may be 195 bps INFO @ Sun, 21 Jun 2020 16:38:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.20_model.r INFO @ Sun, 21 Jun 2020 16:38:52: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:38:52: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 16:39:08: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:39:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.20_peaks.xls INFO @ Sun, 21 Jun 2020 16:39:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:39:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX3548051/ERX3548051.20_summits.bed INFO @ Sun, 21 Jun 2020 16:39:15: Done! pass1 - making usageList (286 chroms): 2 millis pass2 - checking and writing primary data (2353 records, 4 fields): 18 millis CompletedMACS2peakCalling