Job ID = 14168873 SRX = ERX3978896 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 47661865 spots for ERR3975965/ERR3975965.sra Written 47661865 spots for ERR3975965/ERR3975965.sra fastq に変換しました。 bowtie でマッピング中... Your job 14170076 ("srTdm6") has been submitted Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 01:48:26 47661865 reads; of these: 47661865 (100.00%) were paired; of these: 5828506 (12.23%) aligned concordantly 0 times 35158172 (73.77%) aligned concordantly exactly 1 time 6675187 (14.01%) aligned concordantly >1 times ---- 5828506 pairs aligned concordantly 0 times; of these: 1198482 (20.56%) aligned discordantly 1 time ---- 4630024 pairs aligned 0 times concordantly or discordantly; of these: 9260048 mates make up the pairs; of these: 4911998 (53.05%) aligned 0 times 2341667 (25.29%) aligned exactly 1 time 2006383 (21.67%) aligned >1 times 94.85% overall alignment rate Time searching: 01:48:27 Overall time: 01:48:27 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 40 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 35091707 / 42784362 = 0.8202 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 @ Fri, 10 Dec 2021 23:34:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.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 @ Fri, 10 Dec 2021 23:34:09: #1 read tag files... INFO @ Fri, 10 Dec 2021 23:34:09: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 23:34:14: 1000000 INFO @ Fri, 10 Dec 2021 23:34:19: 2000000 INFO @ Fri, 10 Dec 2021 23:34:24: 3000000 INFO @ Fri, 10 Dec 2021 23:34:28: 4000000 INFO @ Fri, 10 Dec 2021 23:34:33: 5000000 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 @ Fri, 10 Dec 2021 23:34:38: 6000000 INFO @ Fri, 10 Dec 2021 23:34:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.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 @ Fri, 10 Dec 2021 23:34:38: #1 read tag files... INFO @ Fri, 10 Dec 2021 23:34:38: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 23:34:43: 7000000 INFO @ Fri, 10 Dec 2021 23:34:44: 1000000 INFO @ Fri, 10 Dec 2021 23:34:48: 8000000 INFO @ Fri, 10 Dec 2021 23:34:50: 2000000 INFO @ Fri, 10 Dec 2021 23:34:53: 9000000 INFO @ Fri, 10 Dec 2021 23:34:56: 3000000 INFO @ Fri, 10 Dec 2021 23:34:58: 10000000 INFO @ Fri, 10 Dec 2021 23:35:02: 4000000 INFO @ Fri, 10 Dec 2021 23:35:03: 11000000 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 @ Fri, 10 Dec 2021 23:35:08: 5000000 INFO @ Fri, 10 Dec 2021 23:35:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.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 @ Fri, 10 Dec 2021 23:35:08: #1 read tag files... INFO @ Fri, 10 Dec 2021 23:35:08: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 23:35:09: 12000000 INFO @ Fri, 10 Dec 2021 23:35:14: 1000000 INFO @ Fri, 10 Dec 2021 23:35:14: 13000000 INFO @ Fri, 10 Dec 2021 23:35:14: 6000000 INFO @ Fri, 10 Dec 2021 23:35:19: 2000000 INFO @ Fri, 10 Dec 2021 23:35:20: 14000000 INFO @ Fri, 10 Dec 2021 23:35:21: 7000000 INFO @ Fri, 10 Dec 2021 23:35:24: 3000000 INFO @ Fri, 10 Dec 2021 23:35:26: 15000000 INFO @ Fri, 10 Dec 2021 23:35:27: 8000000 INFO @ Fri, 10 Dec 2021 23:35:29: 4000000 INFO @ Fri, 10 Dec 2021 23:35:31: 16000000 INFO @ Fri, 10 Dec 2021 23:35:33: 9000000 INFO @ Fri, 10 Dec 2021 23:35:34: 5000000 INFO @ Fri, 10 Dec 2021 23:35:37: 17000000 INFO @ Fri, 10 Dec 2021 23:35:39: 10000000 INFO @ Fri, 10 Dec 2021 23:35:39: 6000000 INFO @ Fri, 10 Dec 2021 23:35:43: 18000000 INFO @ Fri, 10 Dec 2021 23:35:45: 7000000 INFO @ Fri, 10 Dec 2021 23:35:46: 11000000 INFO @ Fri, 10 Dec 2021 23:35:49: 19000000 INFO @ Fri, 10 Dec 2021 23:35:50: 8000000 INFO @ Fri, 10 Dec 2021 23:35:52: 12000000 INFO @ Fri, 10 Dec 2021 23:35:54: 20000000 INFO @ Fri, 10 Dec 2021 23:35:55: 9000000 INFO @ Fri, 10 Dec 2021 23:35:56: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 23:35:56: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 23:35:56: #1 total tags in treatment: 7637083 INFO @ Fri, 10 Dec 2021 23:35:56: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 23:35:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 23:35:56: #1 tags after filtering in treatment: 6542148 INFO @ Fri, 10 Dec 2021 23:35:56: #1 Redundant rate of treatment: 0.14 INFO @ Fri, 10 Dec 2021 23:35:56: #1 finished! INFO @ Fri, 10 Dec 2021 23:35:56: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 23:35:56: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 23:35:57: #2 number of paired peaks: 6531 INFO @ Fri, 10 Dec 2021 23:35:57: start model_add_line... INFO @ Fri, 10 Dec 2021 23:35:57: start X-correlation... INFO @ Fri, 10 Dec 2021 23:35:57: end of X-cor INFO @ Fri, 10 Dec 2021 23:35:57: #2 finished! INFO @ Fri, 10 Dec 2021 23:35:57: #2 predicted fragment length is 174 bps INFO @ Fri, 10 Dec 2021 23:35:57: #2 alternative fragment length(s) may be 174 bps INFO @ Fri, 10 Dec 2021 23:35:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.05_model.r INFO @ Fri, 10 Dec 2021 23:35:57: #3 Call peaks... INFO @ Fri, 10 Dec 2021 23:35:57: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 23:35:58: 13000000 INFO @ Fri, 10 Dec 2021 23:36:00: 10000000 INFO @ Fri, 10 Dec 2021 23:36:05: 14000000 INFO @ Fri, 10 Dec 2021 23:36:05: 11000000 INFO @ Fri, 10 Dec 2021 23:36:10: 12000000 INFO @ Fri, 10 Dec 2021 23:36:11: 15000000 INFO @ Fri, 10 Dec 2021 23:36:12: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 23:36:16: 13000000 INFO @ Fri, 10 Dec 2021 23:36:18: 16000000 INFO @ Fri, 10 Dec 2021 23:36:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.05_peaks.xls INFO @ Fri, 10 Dec 2021 23:36:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 23:36:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.05_summits.bed INFO @ Fri, 10 Dec 2021 23:36:19: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (11447 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 23:36:21: 14000000 INFO @ Fri, 10 Dec 2021 23:36:24: 17000000 INFO @ Fri, 10 Dec 2021 23:36:26: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 23:36:30: 18000000 INFO @ Fri, 10 Dec 2021 23:36:32: 16000000 INFO @ Fri, 10 Dec 2021 23:36:36: 19000000 INFO @ Fri, 10 Dec 2021 23:36:37: 17000000 INFO @ Fri, 10 Dec 2021 23:36:42: 18000000 INFO @ Fri, 10 Dec 2021 23:36:43: 20000000 INFO @ Fri, 10 Dec 2021 23:36:44: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 23:36:44: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 23:36:44: #1 total tags in treatment: 7637083 INFO @ Fri, 10 Dec 2021 23:36:44: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 23:36:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 23:36:44: #1 tags after filtering in treatment: 6542148 INFO @ Fri, 10 Dec 2021 23:36:44: #1 Redundant rate of treatment: 0.14 INFO @ Fri, 10 Dec 2021 23:36:44: #1 finished! INFO @ Fri, 10 Dec 2021 23:36:44: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 23:36:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 23:36:45: #2 number of paired peaks: 6531 INFO @ Fri, 10 Dec 2021 23:36:45: start model_add_line... INFO @ Fri, 10 Dec 2021 23:36:45: start X-correlation... INFO @ Fri, 10 Dec 2021 23:36:45: end of X-cor INFO @ Fri, 10 Dec 2021 23:36:45: #2 finished! INFO @ Fri, 10 Dec 2021 23:36:45: #2 predicted fragment length is 174 bps INFO @ Fri, 10 Dec 2021 23:36:45: #2 alternative fragment length(s) may be 174 bps INFO @ Fri, 10 Dec 2021 23:36:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.10_model.r INFO @ Fri, 10 Dec 2021 23:36:45: #3 Call peaks... INFO @ Fri, 10 Dec 2021 23:36:45: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 23:36:47: 19000000 INFO @ Fri, 10 Dec 2021 23:36:52: 20000000 INFO @ Fri, 10 Dec 2021 23:36:53: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 23:36:53: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 23:36:53: #1 total tags in treatment: 7637083 INFO @ Fri, 10 Dec 2021 23:36:53: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 23:36:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 23:36:54: #1 tags after filtering in treatment: 6542148 INFO @ Fri, 10 Dec 2021 23:36:54: #1 Redundant rate of treatment: 0.14 INFO @ Fri, 10 Dec 2021 23:36:54: #1 finished! INFO @ Fri, 10 Dec 2021 23:36:54: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 23:36:54: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 23:36:54: #2 number of paired peaks: 6531 INFO @ Fri, 10 Dec 2021 23:36:54: start model_add_line... INFO @ Fri, 10 Dec 2021 23:36:54: start X-correlation... INFO @ Fri, 10 Dec 2021 23:36:54: end of X-cor INFO @ Fri, 10 Dec 2021 23:36:54: #2 finished! INFO @ Fri, 10 Dec 2021 23:36:54: #2 predicted fragment length is 174 bps INFO @ Fri, 10 Dec 2021 23:36:54: #2 alternative fragment length(s) may be 174 bps INFO @ Fri, 10 Dec 2021 23:36:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.20_model.r INFO @ Fri, 10 Dec 2021 23:36:54: #3 Call peaks... INFO @ Fri, 10 Dec 2021 23:36:54: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 23:37:00: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 23:37:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.10_peaks.xls INFO @ Fri, 10 Dec 2021 23:37:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 23:37:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.10_summits.bed INFO @ Fri, 10 Dec 2021 23:37:08: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (8303 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 23:37:09: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 23:37:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.20_peaks.xls INFO @ Fri, 10 Dec 2021 23:37:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 23:37:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978896/ERX3978896.20_summits.bed INFO @ Fri, 10 Dec 2021 23:37:16: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (5646 records, 4 fields): 7 millis CompletedMACS2peakCalling