Job ID = 14167976 SRX = ERX3978926 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 32442437 spots for ERR3975995/ERR3975995.sra Written 32442437 spots for ERR3975995/ERR3975995.sra fastq に変換しました。 bowtie でマッピング中... Your job 14168935 ("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: 01:35:00 32442437 reads; of these: 32442437 (100.00%) were paired; of these: 4947905 (15.25%) aligned concordantly 0 times 21210058 (65.38%) aligned concordantly exactly 1 time 6284474 (19.37%) aligned concordantly >1 times ---- 4947905 pairs aligned concordantly 0 times; of these: 740353 (14.96%) aligned discordantly 1 time ---- 4207552 pairs aligned 0 times concordantly or discordantly; of these: 8415104 mates make up the pairs; of these: 3788313 (45.02%) aligned 0 times 2182798 (25.94%) aligned exactly 1 time 2443993 (29.04%) aligned >1 times 94.16% overall alignment rate Time searching: 01:35:00 Overall time: 01:35:00 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 28 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] 18765899 / 27923423 = 0.6720 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 15:53:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.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 15:53:56: #1 read tag files... INFO @ Fri, 10 Dec 2021 15:53:56: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 15:54:01: 1000000 INFO @ Fri, 10 Dec 2021 15:54:07: 2000000 INFO @ Fri, 10 Dec 2021 15:54:12: 3000000 INFO @ Fri, 10 Dec 2021 15:54:18: 4000000 INFO @ Fri, 10 Dec 2021 15:54:23: 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 15:54:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.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 15:54:26: #1 read tag files... INFO @ Fri, 10 Dec 2021 15:54:26: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 15:54:29: 6000000 INFO @ Fri, 10 Dec 2021 15:54:32: 1000000 INFO @ Fri, 10 Dec 2021 15:54:36: 7000000 INFO @ Fri, 10 Dec 2021 15:54:39: 2000000 INFO @ Fri, 10 Dec 2021 15:54:42: 8000000 INFO @ Fri, 10 Dec 2021 15:54:45: 3000000 INFO @ Fri, 10 Dec 2021 15:54:49: 9000000 INFO @ Fri, 10 Dec 2021 15:54:52: 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 15:54:55: 10000000 INFO @ Fri, 10 Dec 2021 15:54:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.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 15:54:56: #1 read tag files... INFO @ Fri, 10 Dec 2021 15:54:56: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 15:54:58: 5000000 INFO @ Fri, 10 Dec 2021 15:55:02: 11000000 INFO @ Fri, 10 Dec 2021 15:55:03: 1000000 INFO @ Fri, 10 Dec 2021 15:55:05: 6000000 INFO @ Fri, 10 Dec 2021 15:55:09: 12000000 INFO @ Fri, 10 Dec 2021 15:55:11: 2000000 INFO @ Fri, 10 Dec 2021 15:55:12: 7000000 INFO @ Fri, 10 Dec 2021 15:55:16: 13000000 INFO @ Fri, 10 Dec 2021 15:55:19: 3000000 INFO @ Fri, 10 Dec 2021 15:55:19: 8000000 INFO @ Fri, 10 Dec 2021 15:55:23: 14000000 INFO @ Fri, 10 Dec 2021 15:55:26: 4000000 INFO @ Fri, 10 Dec 2021 15:55:26: 9000000 INFO @ Fri, 10 Dec 2021 15:55:31: 15000000 INFO @ Fri, 10 Dec 2021 15:55:33: 10000000 INFO @ Fri, 10 Dec 2021 15:55:34: 5000000 INFO @ Fri, 10 Dec 2021 15:55:38: 16000000 INFO @ Fri, 10 Dec 2021 15:55:41: 11000000 INFO @ Fri, 10 Dec 2021 15:55:41: 6000000 INFO @ Fri, 10 Dec 2021 15:55:45: 17000000 INFO @ Fri, 10 Dec 2021 15:55:48: 12000000 INFO @ Fri, 10 Dec 2021 15:55:49: 7000000 INFO @ Fri, 10 Dec 2021 15:55:52: 18000000 INFO @ Fri, 10 Dec 2021 15:55:55: 13000000 INFO @ Fri, 10 Dec 2021 15:55:56: 8000000 INFO @ Fri, 10 Dec 2021 15:55:59: 19000000 INFO @ Fri, 10 Dec 2021 15:56:02: 14000000 INFO @ Fri, 10 Dec 2021 15:56:04: 9000000 INFO @ Fri, 10 Dec 2021 15:56:06: 20000000 INFO @ Fri, 10 Dec 2021 15:56:09: 15000000 INFO @ Fri, 10 Dec 2021 15:56:12: 10000000 INFO @ Fri, 10 Dec 2021 15:56:14: 21000000 INFO @ Fri, 10 Dec 2021 15:56:16: 16000000 INFO @ Fri, 10 Dec 2021 15:56:19: 11000000 INFO @ Fri, 10 Dec 2021 15:56:21: 22000000 INFO @ Fri, 10 Dec 2021 15:56:23: 17000000 INFO @ Fri, 10 Dec 2021 15:56:27: 12000000 INFO @ Fri, 10 Dec 2021 15:56:28: 23000000 INFO @ Fri, 10 Dec 2021 15:56:30: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 15:56:32: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 15:56:32: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 15:56:32: #1 total tags in treatment: 9081993 INFO @ Fri, 10 Dec 2021 15:56:32: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 15:56:32: #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 15:56:32: #1 tags after filtering in treatment: 8294280 INFO @ Fri, 10 Dec 2021 15:56:32: #1 Redundant rate of treatment: 0.09 INFO @ Fri, 10 Dec 2021 15:56:32: #1 finished! INFO @ Fri, 10 Dec 2021 15:56:32: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 15:56:32: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 15:56:33: #2 number of paired peaks: 2037 INFO @ Fri, 10 Dec 2021 15:56:33: start model_add_line... INFO @ Fri, 10 Dec 2021 15:56:33: start X-correlation... INFO @ Fri, 10 Dec 2021 15:56:33: end of X-cor INFO @ Fri, 10 Dec 2021 15:56:33: #2 finished! INFO @ Fri, 10 Dec 2021 15:56:33: #2 predicted fragment length is 155 bps INFO @ Fri, 10 Dec 2021 15:56:33: #2 alternative fragment length(s) may be 155 bps INFO @ Fri, 10 Dec 2021 15:56:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.05_model.r INFO @ Fri, 10 Dec 2021 15:56:33: #3 Call peaks... INFO @ Fri, 10 Dec 2021 15:56:33: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 15:56:34: 13000000 INFO @ Fri, 10 Dec 2021 15:56:37: 19000000 INFO @ Fri, 10 Dec 2021 15:56:42: 14000000 INFO @ Fri, 10 Dec 2021 15:56:45: 20000000 INFO @ Fri, 10 Dec 2021 15:56:50: 15000000 INFO @ Fri, 10 Dec 2021 15:56:50: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 15:56:52: 21000000 INFO @ Fri, 10 Dec 2021 15:56:58: 16000000 INFO @ Fri, 10 Dec 2021 15:56:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.05_peaks.xls INFO @ Fri, 10 Dec 2021 15:56:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 15:56:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.05_summits.bed INFO @ Fri, 10 Dec 2021 15:56:59: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (11197 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 15:56:59: 22000000 INFO @ Fri, 10 Dec 2021 15:57:05: 17000000 INFO @ Fri, 10 Dec 2021 15:57:06: 23000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 15:57:10: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 15:57:10: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 15:57:10: #1 total tags in treatment: 9081993 INFO @ Fri, 10 Dec 2021 15:57:10: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 15:57:10: #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 15:57:10: #1 tags after filtering in treatment: 8294280 INFO @ Fri, 10 Dec 2021 15:57:10: #1 Redundant rate of treatment: 0.09 INFO @ Fri, 10 Dec 2021 15:57:10: #1 finished! INFO @ Fri, 10 Dec 2021 15:57:10: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 15:57:10: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 15:57:11: #2 number of paired peaks: 2037 INFO @ Fri, 10 Dec 2021 15:57:11: start model_add_line... INFO @ Fri, 10 Dec 2021 15:57:11: start X-correlation... INFO @ Fri, 10 Dec 2021 15:57:11: end of X-cor INFO @ Fri, 10 Dec 2021 15:57:11: #2 finished! INFO @ Fri, 10 Dec 2021 15:57:11: #2 predicted fragment length is 155 bps INFO @ Fri, 10 Dec 2021 15:57:11: #2 alternative fragment length(s) may be 155 bps INFO @ Fri, 10 Dec 2021 15:57:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.10_model.r INFO @ Fri, 10 Dec 2021 15:57:11: #3 Call peaks... INFO @ Fri, 10 Dec 2021 15:57:11: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 15:57:13: 18000000 INFO @ Fri, 10 Dec 2021 15:57:20: 19000000 INFO @ Fri, 10 Dec 2021 15:57:27: 20000000 INFO @ Fri, 10 Dec 2021 15:57:28: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 15:57:34: 21000000 INFO @ Fri, 10 Dec 2021 15:57:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.10_peaks.xls INFO @ Fri, 10 Dec 2021 15:57:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 15:57:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.10_summits.bed INFO @ Fri, 10 Dec 2021 15:57:36: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (7415 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 15:57:41: 22000000 INFO @ Fri, 10 Dec 2021 15:57:48: 23000000 INFO @ Fri, 10 Dec 2021 15:57:52: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 15:57:52: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 15:57:52: #1 total tags in treatment: 9081993 INFO @ Fri, 10 Dec 2021 15:57:52: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 15:57:52: #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 15:57:52: #1 tags after filtering in treatment: 8294280 INFO @ Fri, 10 Dec 2021 15:57:52: #1 Redundant rate of treatment: 0.09 INFO @ Fri, 10 Dec 2021 15:57:52: #1 finished! INFO @ Fri, 10 Dec 2021 15:57:52: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 15:57:52: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 15:57:53: #2 number of paired peaks: 2037 INFO @ Fri, 10 Dec 2021 15:57:53: start model_add_line... INFO @ Fri, 10 Dec 2021 15:57:53: start X-correlation... INFO @ Fri, 10 Dec 2021 15:57:53: end of X-cor INFO @ Fri, 10 Dec 2021 15:57:53: #2 finished! INFO @ Fri, 10 Dec 2021 15:57:53: #2 predicted fragment length is 155 bps INFO @ Fri, 10 Dec 2021 15:57:53: #2 alternative fragment length(s) may be 155 bps INFO @ Fri, 10 Dec 2021 15:57:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.20_model.r INFO @ Fri, 10 Dec 2021 15:57:53: #3 Call peaks... INFO @ Fri, 10 Dec 2021 15:57:53: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 15:58:09: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 15:58:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.20_peaks.xls INFO @ Fri, 10 Dec 2021 15:58:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 15:58:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978926/ERX3978926.20_summits.bed INFO @ Fri, 10 Dec 2021 15:58:18: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (4053 records, 4 fields): 6 millis CompletedMACS2peakCalling