Job ID = 12264845 SRX = SRX2745539 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 15769693 spots for SRR5457476/SRR5457476.sra Written 15769693 spots for SRR5457476/SRR5457476.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265401 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:32:02 15769693 reads; of these: 15769693 (100.00%) were paired; of these: 2318127 (14.70%) aligned concordantly 0 times 8780096 (55.68%) aligned concordantly exactly 1 time 4671470 (29.62%) aligned concordantly >1 times ---- 2318127 pairs aligned concordantly 0 times; of these: 970215 (41.85%) aligned discordantly 1 time ---- 1347912 pairs aligned 0 times concordantly or discordantly; of these: 2695824 mates make up the pairs; of these: 1114561 (41.34%) aligned 0 times 525265 (19.48%) aligned exactly 1 time 1055998 (39.17%) aligned >1 times 96.47% overall alignment rate Time searching: 00:32:03 Overall time: 00:32:03 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 16 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] 4784639 / 14392214 = 0.3324 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:35:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.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 @ Sat, 03 Apr 2021 06:35:55: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:35:55: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:36:04: 1000000 INFO @ Sat, 03 Apr 2021 06:36:12: 2000000 INFO @ Sat, 03 Apr 2021 06:36:20: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:36:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.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 @ Sat, 03 Apr 2021 06:36:24: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:36:24: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:36:28: 4000000 INFO @ Sat, 03 Apr 2021 06:36:33: 1000000 INFO @ Sat, 03 Apr 2021 06:36:36: 5000000 INFO @ Sat, 03 Apr 2021 06:36:41: 2000000 INFO @ Sat, 03 Apr 2021 06:36:44: 6000000 INFO @ Sat, 03 Apr 2021 06:36:49: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:36:52: 7000000 INFO @ Sat, 03 Apr 2021 06:36:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.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 @ Sat, 03 Apr 2021 06:36:54: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:36:54: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:36:57: 4000000 INFO @ Sat, 03 Apr 2021 06:37:00: 8000000 INFO @ Sat, 03 Apr 2021 06:37:03: 1000000 INFO @ Sat, 03 Apr 2021 06:37:05: 5000000 INFO @ Sat, 03 Apr 2021 06:37:08: 9000000 INFO @ Sat, 03 Apr 2021 06:37:10: 2000000 INFO @ Sat, 03 Apr 2021 06:37:13: 6000000 INFO @ Sat, 03 Apr 2021 06:37:17: 10000000 INFO @ Sat, 03 Apr 2021 06:37:18: 3000000 INFO @ Sat, 03 Apr 2021 06:37:21: 7000000 INFO @ Sat, 03 Apr 2021 06:37:25: 11000000 INFO @ Sat, 03 Apr 2021 06:37:26: 4000000 INFO @ Sat, 03 Apr 2021 06:37:29: 8000000 INFO @ Sat, 03 Apr 2021 06:37:33: 12000000 INFO @ Sat, 03 Apr 2021 06:37:35: 5000000 INFO @ Sat, 03 Apr 2021 06:37:37: 9000000 INFO @ Sat, 03 Apr 2021 06:37:40: 13000000 INFO @ Sat, 03 Apr 2021 06:37:42: 6000000 INFO @ Sat, 03 Apr 2021 06:37:45: 10000000 INFO @ Sat, 03 Apr 2021 06:37:48: 14000000 INFO @ Sat, 03 Apr 2021 06:37:50: 7000000 INFO @ Sat, 03 Apr 2021 06:37:53: 11000000 INFO @ Sat, 03 Apr 2021 06:37:56: 15000000 INFO @ Sat, 03 Apr 2021 06:37:58: 8000000 INFO @ Sat, 03 Apr 2021 06:38:01: 12000000 INFO @ Sat, 03 Apr 2021 06:38:03: 16000000 INFO @ Sat, 03 Apr 2021 06:38:06: 9000000 INFO @ Sat, 03 Apr 2021 06:38:09: 13000000 INFO @ Sat, 03 Apr 2021 06:38:12: 17000000 INFO @ Sat, 03 Apr 2021 06:38:14: 10000000 INFO @ Sat, 03 Apr 2021 06:38:16: 14000000 INFO @ Sat, 03 Apr 2021 06:38:20: 18000000 INFO @ Sat, 03 Apr 2021 06:38:22: 11000000 INFO @ Sat, 03 Apr 2021 06:38:24: 15000000 INFO @ Sat, 03 Apr 2021 06:38:28: 19000000 INFO @ Sat, 03 Apr 2021 06:38:30: 12000000 INFO @ Sat, 03 Apr 2021 06:38:32: 16000000 INFO @ Sat, 03 Apr 2021 06:38:36: 20000000 INFO @ Sat, 03 Apr 2021 06:38:38: 13000000 INFO @ Sat, 03 Apr 2021 06:38:40: 17000000 INFO @ Sat, 03 Apr 2021 06:38:42: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:38:42: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:38:42: #1 total tags in treatment: 8795370 INFO @ Sat, 03 Apr 2021 06:38:42: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:38:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:38:43: #1 tags after filtering in treatment: 6035285 INFO @ Sat, 03 Apr 2021 06:38:43: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 03 Apr 2021 06:38:43: #1 finished! INFO @ Sat, 03 Apr 2021 06:38:43: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:38:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:38:44: #2 number of paired peaks: 5189 INFO @ Sat, 03 Apr 2021 06:38:44: start model_add_line... INFO @ Sat, 03 Apr 2021 06:38:44: start X-correlation... INFO @ Sat, 03 Apr 2021 06:38:44: end of X-cor INFO @ Sat, 03 Apr 2021 06:38:44: #2 finished! INFO @ Sat, 03 Apr 2021 06:38:44: #2 predicted fragment length is 149 bps INFO @ Sat, 03 Apr 2021 06:38:44: #2 alternative fragment length(s) may be 149 bps INFO @ Sat, 03 Apr 2021 06:38:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.05_model.r INFO @ Sat, 03 Apr 2021 06:38:44: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:38:44: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:38:45: 14000000 INFO @ Sat, 03 Apr 2021 06:38:47: 18000000 INFO @ Sat, 03 Apr 2021 06:38:53: 15000000 INFO @ Sat, 03 Apr 2021 06:38:55: 19000000 INFO @ Sat, 03 Apr 2021 06:39:00: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:39:03: 20000000 INFO @ Sat, 03 Apr 2021 06:39:05: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:39:09: 17000000 INFO @ Sat, 03 Apr 2021 06:39:10: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:39:10: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:39:10: #1 total tags in treatment: 8795370 INFO @ Sat, 03 Apr 2021 06:39:10: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:39:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:39:10: #1 tags after filtering in treatment: 6035285 INFO @ Sat, 03 Apr 2021 06:39:10: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 03 Apr 2021 06:39:10: #1 finished! INFO @ Sat, 03 Apr 2021 06:39:10: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:39:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:39:11: #2 number of paired peaks: 5189 INFO @ Sat, 03 Apr 2021 06:39:11: start model_add_line... INFO @ Sat, 03 Apr 2021 06:39:11: start X-correlation... INFO @ Sat, 03 Apr 2021 06:39:11: end of X-cor INFO @ Sat, 03 Apr 2021 06:39:11: #2 finished! INFO @ Sat, 03 Apr 2021 06:39:11: #2 predicted fragment length is 149 bps INFO @ Sat, 03 Apr 2021 06:39:11: #2 alternative fragment length(s) may be 149 bps INFO @ Sat, 03 Apr 2021 06:39:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.10_model.r INFO @ Sat, 03 Apr 2021 06:39:11: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:39:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:39:16: 18000000 INFO @ Sat, 03 Apr 2021 06:39:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:39:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:39:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.05_summits.bed INFO @ Sat, 03 Apr 2021 06:39:17: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (9467 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:39:24: 19000000 INFO @ Sat, 03 Apr 2021 06:39:31: 20000000 INFO @ Sat, 03 Apr 2021 06:39:32: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:39:37: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:39:37: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:39:37: #1 total tags in treatment: 8795370 INFO @ Sat, 03 Apr 2021 06:39:37: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:39:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:39:38: #1 tags after filtering in treatment: 6035285 INFO @ Sat, 03 Apr 2021 06:39:38: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 03 Apr 2021 06:39:38: #1 finished! INFO @ Sat, 03 Apr 2021 06:39:38: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:39:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:39:39: #2 number of paired peaks: 5189 INFO @ Sat, 03 Apr 2021 06:39:39: start model_add_line... INFO @ Sat, 03 Apr 2021 06:39:39: start X-correlation... INFO @ Sat, 03 Apr 2021 06:39:39: end of X-cor INFO @ Sat, 03 Apr 2021 06:39:39: #2 finished! INFO @ Sat, 03 Apr 2021 06:39:39: #2 predicted fragment length is 149 bps INFO @ Sat, 03 Apr 2021 06:39:39: #2 alternative fragment length(s) may be 149 bps INFO @ Sat, 03 Apr 2021 06:39:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.20_model.r INFO @ Sat, 03 Apr 2021 06:39:39: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:39:39: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:39:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:39:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:39:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.10_summits.bed INFO @ Sat, 03 Apr 2021 06:39:44: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (6315 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:40:00: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:40:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:40:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:40:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX2745539/SRX2745539.20_summits.bed INFO @ Sat, 03 Apr 2021 06:40:13: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (3290 records, 4 fields): 13 millis CompletedMACS2peakCalling