Job ID = 14168722 SRX = ERX3978883 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 44360302 spots for ERR3975952/ERR3975952.sra Written 44360302 spots for ERR3975952/ERR3975952.sra fastq に変換しました。 bowtie でマッピング中... Your job 14169954 ("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: 02:09:47 44360302 reads; of these: 44360302 (100.00%) were paired; of these: 5680380 (12.81%) aligned concordantly 0 times 29202529 (65.83%) aligned concordantly exactly 1 time 9477393 (21.36%) aligned concordantly >1 times ---- 5680380 pairs aligned concordantly 0 times; of these: 659013 (11.60%) aligned discordantly 1 time ---- 5021367 pairs aligned 0 times concordantly or discordantly; of these: 10042734 mates make up the pairs; of these: 4738467 (47.18%) aligned 0 times 2362857 (23.53%) aligned exactly 1 time 2941410 (29.29%) aligned >1 times 94.66% overall alignment rate Time searching: 02:09:47 Overall time: 02:09:47 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] 26807951 / 39106665 = 0.6855 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 22:20:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.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 22:20:24: #1 read tag files... INFO @ Fri, 10 Dec 2021 22:20:24: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 22:20:31: 1000000 INFO @ Fri, 10 Dec 2021 22:20:38: 2000000 INFO @ Fri, 10 Dec 2021 22:20:44: 3000000 INFO @ Fri, 10 Dec 2021 22:20:51: 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 22:20:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.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 22:20:55: #1 read tag files... INFO @ Fri, 10 Dec 2021 22:20:55: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 22:20:58: 5000000 INFO @ Fri, 10 Dec 2021 22:21:01: 1000000 INFO @ Fri, 10 Dec 2021 22:21:05: 6000000 INFO @ Fri, 10 Dec 2021 22:21:08: 2000000 INFO @ Fri, 10 Dec 2021 22:21:12: 7000000 INFO @ Fri, 10 Dec 2021 22:21:14: 3000000 INFO @ Fri, 10 Dec 2021 22:21:19: 8000000 INFO @ Fri, 10 Dec 2021 22:21:21: 4000000 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 22:21:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.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 22:21:24: #1 read tag files... INFO @ Fri, 10 Dec 2021 22:21:24: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 22:21:27: 9000000 INFO @ Fri, 10 Dec 2021 22:21:28: 5000000 INFO @ Fri, 10 Dec 2021 22:21:31: 1000000 INFO @ Fri, 10 Dec 2021 22:21:34: 10000000 INFO @ Fri, 10 Dec 2021 22:21:35: 6000000 INFO @ Fri, 10 Dec 2021 22:21:38: 2000000 INFO @ Fri, 10 Dec 2021 22:21:41: 11000000 INFO @ Fri, 10 Dec 2021 22:21:41: 7000000 INFO @ Fri, 10 Dec 2021 22:21:45: 3000000 INFO @ Fri, 10 Dec 2021 22:21:48: 12000000 INFO @ Fri, 10 Dec 2021 22:21:48: 8000000 INFO @ Fri, 10 Dec 2021 22:21:52: 4000000 INFO @ Fri, 10 Dec 2021 22:21:55: 9000000 INFO @ Fri, 10 Dec 2021 22:21:55: 13000000 INFO @ Fri, 10 Dec 2021 22:21:59: 5000000 INFO @ Fri, 10 Dec 2021 22:22:02: 10000000 INFO @ Fri, 10 Dec 2021 22:22:03: 14000000 INFO @ Fri, 10 Dec 2021 22:22:05: 6000000 INFO @ Fri, 10 Dec 2021 22:22:09: 11000000 INFO @ Fri, 10 Dec 2021 22:22:10: 15000000 INFO @ Fri, 10 Dec 2021 22:22:12: 7000000 INFO @ Fri, 10 Dec 2021 22:22:16: 12000000 INFO @ Fri, 10 Dec 2021 22:22:17: 16000000 INFO @ Fri, 10 Dec 2021 22:22:19: 8000000 INFO @ Fri, 10 Dec 2021 22:22:23: 13000000 INFO @ Fri, 10 Dec 2021 22:22:25: 17000000 INFO @ Fri, 10 Dec 2021 22:22:26: 9000000 INFO @ Fri, 10 Dec 2021 22:22:29: 14000000 INFO @ Fri, 10 Dec 2021 22:22:32: 10000000 INFO @ Fri, 10 Dec 2021 22:22:33: 18000000 INFO @ Fri, 10 Dec 2021 22:22:36: 15000000 INFO @ Fri, 10 Dec 2021 22:22:39: 11000000 INFO @ Fri, 10 Dec 2021 22:22:40: 19000000 INFO @ Fri, 10 Dec 2021 22:22:43: 16000000 INFO @ Fri, 10 Dec 2021 22:22:46: 12000000 INFO @ Fri, 10 Dec 2021 22:22:48: 20000000 INFO @ Fri, 10 Dec 2021 22:22:50: 17000000 INFO @ Fri, 10 Dec 2021 22:22:53: 13000000 INFO @ Fri, 10 Dec 2021 22:22:55: 21000000 INFO @ Fri, 10 Dec 2021 22:22:57: 18000000 INFO @ Fri, 10 Dec 2021 22:23:00: 14000000 INFO @ Fri, 10 Dec 2021 22:23:03: 22000000 INFO @ Fri, 10 Dec 2021 22:23:03: 19000000 INFO @ Fri, 10 Dec 2021 22:23:06: 15000000 INFO @ Fri, 10 Dec 2021 22:23:10: 20000000 INFO @ Fri, 10 Dec 2021 22:23:10: 23000000 INFO @ Fri, 10 Dec 2021 22:23:13: 16000000 INFO @ Fri, 10 Dec 2021 22:23:17: 21000000 INFO @ Fri, 10 Dec 2021 22:23:18: 24000000 INFO @ Fri, 10 Dec 2021 22:23:20: 17000000 INFO @ Fri, 10 Dec 2021 22:23:24: 22000000 INFO @ Fri, 10 Dec 2021 22:23:25: 25000000 INFO @ Fri, 10 Dec 2021 22:23:27: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 22:23:31: 23000000 INFO @ Fri, 10 Dec 2021 22:23:33: 26000000 INFO @ Fri, 10 Dec 2021 22:23:33: 19000000 INFO @ Fri, 10 Dec 2021 22:23:38: 24000000 INFO @ Fri, 10 Dec 2021 22:23:40: 27000000 INFO @ Fri, 10 Dec 2021 22:23:40: 20000000 INFO @ Fri, 10 Dec 2021 22:23:45: 25000000 INFO @ Fri, 10 Dec 2021 22:23:47: 28000000 INFO @ Fri, 10 Dec 2021 22:23:47: 21000000 INFO @ Fri, 10 Dec 2021 22:23:52: 26000000 INFO @ Fri, 10 Dec 2021 22:23:54: 22000000 INFO @ Fri, 10 Dec 2021 22:23:54: 29000000 INFO @ Fri, 10 Dec 2021 22:23:58: 27000000 INFO @ Fri, 10 Dec 2021 22:24:01: 23000000 INFO @ Fri, 10 Dec 2021 22:24:01: 30000000 INFO @ Fri, 10 Dec 2021 22:24:04: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 22:24:04: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 22:24:04: #1 total tags in treatment: 12255357 INFO @ Fri, 10 Dec 2021 22:24:04: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 22:24:04: #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 22:24:04: #1 tags after filtering in treatment: 10978449 INFO @ Fri, 10 Dec 2021 22:24:04: #1 Redundant rate of treatment: 0.10 INFO @ Fri, 10 Dec 2021 22:24:04: #1 finished! INFO @ Fri, 10 Dec 2021 22:24:04: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 22:24:04: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 22:24:05: #2 number of paired peaks: 1328 INFO @ Fri, 10 Dec 2021 22:24:05: start model_add_line... INFO @ Fri, 10 Dec 2021 22:24:05: start X-correlation... INFO @ Fri, 10 Dec 2021 22:24:05: end of X-cor INFO @ Fri, 10 Dec 2021 22:24:05: #2 finished! INFO @ Fri, 10 Dec 2021 22:24:05: #2 predicted fragment length is 156 bps INFO @ Fri, 10 Dec 2021 22:24:05: #2 alternative fragment length(s) may be 156 bps INFO @ Fri, 10 Dec 2021 22:24:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.05_model.r INFO @ Fri, 10 Dec 2021 22:24:05: #3 Call peaks... INFO @ Fri, 10 Dec 2021 22:24:05: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 22:24:05: 28000000 INFO @ Fri, 10 Dec 2021 22:24:07: 24000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 22:24:12: 29000000 INFO @ Fri, 10 Dec 2021 22:24:14: 25000000 INFO @ Fri, 10 Dec 2021 22:24:18: 30000000 INFO @ Fri, 10 Dec 2021 22:24:20: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 22:24:20: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 22:24:20: #1 total tags in treatment: 12255357 INFO @ Fri, 10 Dec 2021 22:24:20: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 22:24:20: #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 22:24:20: 26000000 INFO @ Fri, 10 Dec 2021 22:24:20: #1 tags after filtering in treatment: 10978449 INFO @ Fri, 10 Dec 2021 22:24:20: #1 Redundant rate of treatment: 0.10 INFO @ Fri, 10 Dec 2021 22:24:20: #1 finished! INFO @ Fri, 10 Dec 2021 22:24:20: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 22:24:20: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 22:24:21: #2 number of paired peaks: 1328 INFO @ Fri, 10 Dec 2021 22:24:21: start model_add_line... INFO @ Fri, 10 Dec 2021 22:24:21: start X-correlation... INFO @ Fri, 10 Dec 2021 22:24:21: end of X-cor INFO @ Fri, 10 Dec 2021 22:24:21: #2 finished! INFO @ Fri, 10 Dec 2021 22:24:21: #2 predicted fragment length is 156 bps INFO @ Fri, 10 Dec 2021 22:24:21: #2 alternative fragment length(s) may be 156 bps INFO @ Fri, 10 Dec 2021 22:24:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.10_model.r INFO @ Fri, 10 Dec 2021 22:24:21: #3 Call peaks... INFO @ Fri, 10 Dec 2021 22:24:21: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 22:24:26: 27000000 INFO @ Fri, 10 Dec 2021 22:24:27: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 22:24:32: 28000000 INFO @ Fri, 10 Dec 2021 22:24:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.05_peaks.xls INFO @ Fri, 10 Dec 2021 22:24:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 22:24:38: 29000000 INFO @ Fri, 10 Dec 2021 22:24:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.05_summits.bed INFO @ Fri, 10 Dec 2021 22:24:38: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (13331 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 22:24:43: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 22:24:44: 30000000 INFO @ Fri, 10 Dec 2021 22:24:46: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 22:24:46: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 22:24:46: #1 total tags in treatment: 12255357 INFO @ Fri, 10 Dec 2021 22:24:46: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 22:24:46: #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 22:24:46: #1 tags after filtering in treatment: 10978449 INFO @ Fri, 10 Dec 2021 22:24:46: #1 Redundant rate of treatment: 0.10 INFO @ Fri, 10 Dec 2021 22:24:46: #1 finished! INFO @ Fri, 10 Dec 2021 22:24:46: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 22:24:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 22:24:47: #2 number of paired peaks: 1328 INFO @ Fri, 10 Dec 2021 22:24:47: start model_add_line... INFO @ Fri, 10 Dec 2021 22:24:47: start X-correlation... INFO @ Fri, 10 Dec 2021 22:24:47: end of X-cor INFO @ Fri, 10 Dec 2021 22:24:47: #2 finished! INFO @ Fri, 10 Dec 2021 22:24:47: #2 predicted fragment length is 156 bps INFO @ Fri, 10 Dec 2021 22:24:47: #2 alternative fragment length(s) may be 156 bps INFO @ Fri, 10 Dec 2021 22:24:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.20_model.r INFO @ Fri, 10 Dec 2021 22:24:47: #3 Call peaks... INFO @ Fri, 10 Dec 2021 22:24:47: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 22:24:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.10_peaks.xls INFO @ Fri, 10 Dec 2021 22:24:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 22:24:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.10_summits.bed INFO @ Fri, 10 Dec 2021 22:24:54: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (9229 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 22:25:08: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 22:25:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.20_peaks.xls INFO @ Fri, 10 Dec 2021 22:25:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 22:25:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978883/ERX3978883.20_summits.bed INFO @ Fri, 10 Dec 2021 22:25:19: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (4825 records, 4 fields): 6 millis CompletedMACS2peakCalling