Job ID = 14168752 SRX = ERX3978886 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 41570080 spots for ERR3975955/ERR3975955.sra Written 41570080 spots for ERR3975955/ERR3975955.sra fastq に変換しました。 bowtie でマッピング中... Your job 14170014 ("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: 02:23:09 41570080 reads; of these: 41570080 (100.00%) were paired; of these: 4598609 (11.06%) aligned concordantly 0 times 30147944 (72.52%) aligned concordantly exactly 1 time 6823527 (16.41%) aligned concordantly >1 times ---- 4598609 pairs aligned concordantly 0 times; of these: 1035008 (22.51%) aligned discordantly 1 time ---- 3563601 pairs aligned 0 times concordantly or discordantly; of these: 7127202 mates make up the pairs; of these: 3707698 (52.02%) aligned 0 times 1597730 (22.42%) aligned exactly 1 time 1821774 (25.56%) aligned >1 times 95.54% overall alignment rate Time searching: 02:23:09 Overall time: 02:23:09 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 36 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] 30196887 / 37880609 = 0.7972 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 22:40:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.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 22:40:35: #1 read tag files... INFO @ Fri, 10 Dec 2021 22:40:35: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 22:40:42: 1000000 INFO @ Fri, 10 Dec 2021 22:40:48: 2000000 INFO @ Fri, 10 Dec 2021 22:40:55: 3000000 INFO @ Fri, 10 Dec 2021 22:41:01: 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 @ Fri, 10 Dec 2021 22:41:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.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 22:41:04: #1 read tag files... INFO @ Fri, 10 Dec 2021 22:41:04: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 22:41:09: 5000000 INFO @ Fri, 10 Dec 2021 22:41:14: 1000000 INFO @ Fri, 10 Dec 2021 22:41:19: 6000000 INFO @ Fri, 10 Dec 2021 22:41:23: 2000000 INFO @ Fri, 10 Dec 2021 22:41:27: 7000000 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 22:41:33: 3000000 INFO @ Fri, 10 Dec 2021 22:41:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.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 22:41:35: #1 read tag files... INFO @ Fri, 10 Dec 2021 22:41:35: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 22:41:38: 8000000 INFO @ Fri, 10 Dec 2021 22:41:41: 4000000 INFO @ Fri, 10 Dec 2021 22:41:44: 1000000 INFO @ Fri, 10 Dec 2021 22:41:46: 9000000 INFO @ Fri, 10 Dec 2021 22:41:50: 5000000 INFO @ Fri, 10 Dec 2021 22:41:55: 2000000 INFO @ Fri, 10 Dec 2021 22:41:56: 10000000 INFO @ Fri, 10 Dec 2021 22:42:02: 6000000 INFO @ Fri, 10 Dec 2021 22:42:04: 11000000 INFO @ Fri, 10 Dec 2021 22:42:05: 3000000 INFO @ Fri, 10 Dec 2021 22:42:11: 7000000 INFO @ Fri, 10 Dec 2021 22:42:12: 12000000 INFO @ Fri, 10 Dec 2021 22:42:15: 4000000 INFO @ Fri, 10 Dec 2021 22:42:19: 8000000 INFO @ Fri, 10 Dec 2021 22:42:20: 13000000 INFO @ Fri, 10 Dec 2021 22:42:23: 5000000 INFO @ Fri, 10 Dec 2021 22:42:26: 9000000 INFO @ Fri, 10 Dec 2021 22:42:28: 14000000 INFO @ Fri, 10 Dec 2021 22:42:30: 6000000 INFO @ Fri, 10 Dec 2021 22:42:34: 10000000 INFO @ Fri, 10 Dec 2021 22:42:36: 15000000 INFO @ Fri, 10 Dec 2021 22:42:37: 7000000 INFO @ Fri, 10 Dec 2021 22:42:42: 11000000 INFO @ Fri, 10 Dec 2021 22:42:43: 16000000 INFO @ Fri, 10 Dec 2021 22:42:44: 8000000 INFO @ Fri, 10 Dec 2021 22:42:49: 12000000 INFO @ Fri, 10 Dec 2021 22:42:51: 9000000 INFO @ Fri, 10 Dec 2021 22:42:51: 17000000 INFO @ Fri, 10 Dec 2021 22:42:58: 13000000 INFO @ Fri, 10 Dec 2021 22:42:59: 10000000 INFO @ Fri, 10 Dec 2021 22:43:00: 18000000 INFO @ Fri, 10 Dec 2021 22:43:06: 14000000 INFO @ Fri, 10 Dec 2021 22:43:06: 11000000 INFO @ Fri, 10 Dec 2021 22:43:08: 19000000 INFO @ Fri, 10 Dec 2021 22:43:08: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 22:43:08: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 22:43:08: #1 total tags in treatment: 7470629 INFO @ Fri, 10 Dec 2021 22:43:08: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 22:43:08: #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 22:43:08: #1 tags after filtering in treatment: 6439125 INFO @ Fri, 10 Dec 2021 22:43:08: #1 Redundant rate of treatment: 0.14 INFO @ Fri, 10 Dec 2021 22:43:08: #1 finished! INFO @ Fri, 10 Dec 2021 22:43:08: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 22:43:08: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 22:43:09: #2 number of paired peaks: 6508 INFO @ Fri, 10 Dec 2021 22:43:09: start model_add_line... INFO @ Fri, 10 Dec 2021 22:43:09: start X-correlation... INFO @ Fri, 10 Dec 2021 22:43:09: end of X-cor INFO @ Fri, 10 Dec 2021 22:43:09: #2 finished! INFO @ Fri, 10 Dec 2021 22:43:09: #2 predicted fragment length is 214 bps INFO @ Fri, 10 Dec 2021 22:43:09: #2 alternative fragment length(s) may be 214 bps INFO @ Fri, 10 Dec 2021 22:43:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.05_model.r INFO @ Fri, 10 Dec 2021 22:43:09: #3 Call peaks... INFO @ Fri, 10 Dec 2021 22:43:09: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 22:43:13: 15000000 INFO @ Fri, 10 Dec 2021 22:43:14: 12000000 INFO @ Fri, 10 Dec 2021 22:43:20: 16000000 INFO @ Fri, 10 Dec 2021 22:43:21: 13000000 INFO @ Fri, 10 Dec 2021 22:43:26: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 22:43:28: 17000000 INFO @ Fri, 10 Dec 2021 22:43:29: 14000000 INFO @ Fri, 10 Dec 2021 22:43:36: 18000000 INFO @ Fri, 10 Dec 2021 22:43:37: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.05_peaks.xls INFO @ Fri, 10 Dec 2021 22:43:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 22:43:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.05_summits.bed INFO @ Fri, 10 Dec 2021 22:43:38: Done! INFO @ Fri, 10 Dec 2021 22:43:38: 15000000 pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (11265 records, 4 fields): 16 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 22:43:43: 19000000 INFO @ Fri, 10 Dec 2021 22:43:43: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 22:43:43: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 22:43:43: #1 total tags in treatment: 7470629 INFO @ Fri, 10 Dec 2021 22:43:43: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 22:43:43: #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 22:43:43: #1 tags after filtering in treatment: 6439125 INFO @ Fri, 10 Dec 2021 22:43:43: #1 Redundant rate of treatment: 0.14 INFO @ Fri, 10 Dec 2021 22:43:43: #1 finished! INFO @ Fri, 10 Dec 2021 22:43:43: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 22:43:43: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 22:43:44: #2 number of paired peaks: 6508 INFO @ Fri, 10 Dec 2021 22:43:44: start model_add_line... INFO @ Fri, 10 Dec 2021 22:43:44: start X-correlation... INFO @ Fri, 10 Dec 2021 22:43:44: end of X-cor INFO @ Fri, 10 Dec 2021 22:43:44: #2 finished! INFO @ Fri, 10 Dec 2021 22:43:44: #2 predicted fragment length is 214 bps INFO @ Fri, 10 Dec 2021 22:43:44: #2 alternative fragment length(s) may be 214 bps INFO @ Fri, 10 Dec 2021 22:43:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.10_model.r INFO @ Fri, 10 Dec 2021 22:43:44: #3 Call peaks... INFO @ Fri, 10 Dec 2021 22:43:44: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 22:43:45: 16000000 INFO @ Fri, 10 Dec 2021 22:43:53: 17000000 INFO @ Fri, 10 Dec 2021 22:44:00: 18000000 INFO @ Fri, 10 Dec 2021 22:44:03: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 22:44:06: 19000000 INFO @ Fri, 10 Dec 2021 22:44:07: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 22:44:07: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 22:44:07: #1 total tags in treatment: 7470629 INFO @ Fri, 10 Dec 2021 22:44:07: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 22:44:07: #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 22:44:07: #1 tags after filtering in treatment: 6439125 INFO @ Fri, 10 Dec 2021 22:44:07: #1 Redundant rate of treatment: 0.14 INFO @ Fri, 10 Dec 2021 22:44:07: #1 finished! INFO @ Fri, 10 Dec 2021 22:44:07: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 22:44:07: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 22:44:08: #2 number of paired peaks: 6508 INFO @ Fri, 10 Dec 2021 22:44:08: start model_add_line... INFO @ Fri, 10 Dec 2021 22:44:08: start X-correlation... INFO @ Fri, 10 Dec 2021 22:44:08: end of X-cor INFO @ Fri, 10 Dec 2021 22:44:08: #2 finished! INFO @ Fri, 10 Dec 2021 22:44:08: #2 predicted fragment length is 214 bps INFO @ Fri, 10 Dec 2021 22:44:08: #2 alternative fragment length(s) may be 214 bps INFO @ Fri, 10 Dec 2021 22:44:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.20_model.r INFO @ Fri, 10 Dec 2021 22:44:08: #3 Call peaks... INFO @ Fri, 10 Dec 2021 22:44:08: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 22:44:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.10_peaks.xls INFO @ Fri, 10 Dec 2021 22:44:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 22:44:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.10_summits.bed INFO @ Fri, 10 Dec 2021 22:44:12: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (8385 records, 4 fields): 12 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 22:44:25: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 22:44:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.20_peaks.xls INFO @ Fri, 10 Dec 2021 22:44:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 22:44:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978886/ERX3978886.20_summits.bed INFO @ Fri, 10 Dec 2021 22:44:34: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (5764 records, 4 fields): 9 millis CompletedMACS2peakCalling