Job ID = 14167219 SRX = SRX9047373 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 25247292 spots for SRR12558901/SRR12558901.sra Written 25247292 spots for SRR12558901/SRR12558901.sra fastq に変換しました。 bowtie でマッピング中... Your job 14168018 ("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: 01:06:06 25247292 reads; of these: 25247292 (100.00%) were paired; of these: 4317314 (17.10%) aligned concordantly 0 times 15570965 (61.67%) aligned concordantly exactly 1 time 5359013 (21.23%) aligned concordantly >1 times ---- 4317314 pairs aligned concordantly 0 times; of these: 1764002 (40.86%) aligned discordantly 1 time ---- 2553312 pairs aligned 0 times concordantly or discordantly; of these: 5106624 mates make up the pairs; of these: 2531946 (49.58%) aligned 0 times 947544 (18.56%) aligned exactly 1 time 1627134 (31.86%) aligned >1 times 94.99% overall alignment rate Time searching: 01:06:06 Overall time: 01:06:06 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 20 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] 2095019 / 22640927 = 0.0925 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 12:26:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.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 12:26:03: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:26:03: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:26:09: 1000000 INFO @ Fri, 10 Dec 2021 12:26:14: 2000000 INFO @ Fri, 10 Dec 2021 12:26:20: 3000000 INFO @ Fri, 10 Dec 2021 12:26:26: 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 12:26:32: 5000000 INFO @ Fri, 10 Dec 2021 12:26:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.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 12:26:32: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:26:32: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:26:37: 6000000 INFO @ Fri, 10 Dec 2021 12:26:38: 1000000 INFO @ Fri, 10 Dec 2021 12:26:43: 7000000 INFO @ Fri, 10 Dec 2021 12:26:45: 2000000 INFO @ Fri, 10 Dec 2021 12:26:49: 8000000 INFO @ Fri, 10 Dec 2021 12:26:52: 3000000 INFO @ Fri, 10 Dec 2021 12:26:55: 9000000 BedGraph に変換中... INFO @ Fri, 10 Dec 2021 12:26:59: 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 12:27:01: 10000000 INFO @ Fri, 10 Dec 2021 12:27:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.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 12:27:02: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:27:02: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:27:06: 5000000 INFO @ Fri, 10 Dec 2021 12:27:07: 11000000 INFO @ Fri, 10 Dec 2021 12:27:07: 1000000 INFO @ Fri, 10 Dec 2021 12:27:13: 6000000 INFO @ Fri, 10 Dec 2021 12:27:13: 2000000 INFO @ Fri, 10 Dec 2021 12:27:13: 12000000 INFO @ Fri, 10 Dec 2021 12:27:19: 3000000 INFO @ Fri, 10 Dec 2021 12:27:19: 13000000 INFO @ Fri, 10 Dec 2021 12:27:20: 7000000 INFO @ Fri, 10 Dec 2021 12:27:25: 4000000 INFO @ Fri, 10 Dec 2021 12:27:26: 14000000 INFO @ Fri, 10 Dec 2021 12:27:27: 8000000 INFO @ Fri, 10 Dec 2021 12:27:32: 5000000 INFO @ Fri, 10 Dec 2021 12:27:32: 15000000 INFO @ Fri, 10 Dec 2021 12:27:35: 9000000 INFO @ Fri, 10 Dec 2021 12:27:38: 16000000 INFO @ Fri, 10 Dec 2021 12:27:38: 6000000 INFO @ Fri, 10 Dec 2021 12:27:41: 10000000 INFO @ Fri, 10 Dec 2021 12:27:44: 17000000 INFO @ Fri, 10 Dec 2021 12:27:44: 7000000 INFO @ Fri, 10 Dec 2021 12:27:48: 11000000 INFO @ Fri, 10 Dec 2021 12:27:50: 18000000 INFO @ Fri, 10 Dec 2021 12:27:51: 8000000 INFO @ Fri, 10 Dec 2021 12:27:54: 12000000 INFO @ Fri, 10 Dec 2021 12:27:55: 19000000 INFO @ Fri, 10 Dec 2021 12:27:56: 9000000 INFO @ Fri, 10 Dec 2021 12:28:01: 13000000 INFO @ Fri, 10 Dec 2021 12:28:01: 20000000 INFO @ Fri, 10 Dec 2021 12:28:02: 10000000 INFO @ Fri, 10 Dec 2021 12:28:07: 21000000 INFO @ Fri, 10 Dec 2021 12:28:08: 14000000 INFO @ Fri, 10 Dec 2021 12:28:08: 11000000 INFO @ Fri, 10 Dec 2021 12:28:13: 22000000 INFO @ Fri, 10 Dec 2021 12:28:14: 12000000 INFO @ Fri, 10 Dec 2021 12:28:14: 15000000 INFO @ Fri, 10 Dec 2021 12:28:18: 23000000 INFO @ Fri, 10 Dec 2021 12:28:19: 13000000 INFO @ Fri, 10 Dec 2021 12:28:20: 16000000 INFO @ Fri, 10 Dec 2021 12:28:24: 24000000 INFO @ Fri, 10 Dec 2021 12:28:26: 14000000 INFO @ Fri, 10 Dec 2021 12:28:27: 17000000 INFO @ Fri, 10 Dec 2021 12:28:30: 25000000 INFO @ Fri, 10 Dec 2021 12:28:32: 15000000 INFO @ Fri, 10 Dec 2021 12:28:33: 18000000 INFO @ Fri, 10 Dec 2021 12:28:35: 26000000 INFO @ Fri, 10 Dec 2021 12:28:38: 16000000 INFO @ Fri, 10 Dec 2021 12:28:39: 19000000 INFO @ Fri, 10 Dec 2021 12:28:40: 27000000 INFO @ Fri, 10 Dec 2021 12:28:43: 17000000 INFO @ Fri, 10 Dec 2021 12:28:45: 20000000 INFO @ Fri, 10 Dec 2021 12:28:46: 28000000 INFO @ Fri, 10 Dec 2021 12:28:47: 18000000 INFO @ Fri, 10 Dec 2021 12:28:51: 29000000 INFO @ Fri, 10 Dec 2021 12:28:51: 21000000 INFO @ Fri, 10 Dec 2021 12:28:52: 19000000 INFO @ Fri, 10 Dec 2021 12:28:56: 30000000 INFO @ Fri, 10 Dec 2021 12:28:57: 20000000 INFO @ Fri, 10 Dec 2021 12:28:57: 22000000 INFO @ Fri, 10 Dec 2021 12:29:01: 31000000 INFO @ Fri, 10 Dec 2021 12:29:02: 21000000 INFO @ Fri, 10 Dec 2021 12:29:03: 23000000 INFO @ Fri, 10 Dec 2021 12:29:07: 32000000 INFO @ Fri, 10 Dec 2021 12:29:07: 22000000 INFO @ Fri, 10 Dec 2021 12:29:09: 24000000 INFO @ Fri, 10 Dec 2021 12:29:12: 23000000 INFO @ Fri, 10 Dec 2021 12:29:13: 33000000 INFO @ Fri, 10 Dec 2021 12:29:16: 25000000 INFO @ Fri, 10 Dec 2021 12:29:18: 24000000 INFO @ Fri, 10 Dec 2021 12:29:18: 34000000 INFO @ Fri, 10 Dec 2021 12:29:22: 26000000 INFO @ Fri, 10 Dec 2021 12:29:23: 25000000 INFO @ Fri, 10 Dec 2021 12:29:24: 35000000 INFO @ Fri, 10 Dec 2021 12:29:28: 26000000 INFO @ Fri, 10 Dec 2021 12:29:28: 27000000 INFO @ Fri, 10 Dec 2021 12:29:29: 36000000 INFO @ Fri, 10 Dec 2021 12:29:33: 27000000 INFO @ Fri, 10 Dec 2021 12:29:35: 28000000 INFO @ Fri, 10 Dec 2021 12:29:35: 37000000 INFO @ Fri, 10 Dec 2021 12:29:38: 28000000 INFO @ Fri, 10 Dec 2021 12:29:41: 38000000 INFO @ Fri, 10 Dec 2021 12:29:41: 29000000 INFO @ Fri, 10 Dec 2021 12:29:43: 29000000 INFO @ Fri, 10 Dec 2021 12:29:46: 39000000 INFO @ Fri, 10 Dec 2021 12:29:47: 30000000 INFO @ Fri, 10 Dec 2021 12:29:48: 30000000 INFO @ Fri, 10 Dec 2021 12:29:52: 40000000 INFO @ Fri, 10 Dec 2021 12:29:54: 31000000 INFO @ Fri, 10 Dec 2021 12:29:54: 31000000 INFO @ Fri, 10 Dec 2021 12:29:57: 41000000 INFO @ Fri, 10 Dec 2021 12:30:00: 32000000 INFO @ Fri, 10 Dec 2021 12:30:00: 32000000 INFO @ Fri, 10 Dec 2021 12:30:03: 42000000 INFO @ Fri, 10 Dec 2021 12:30:05: 33000000 INFO @ Fri, 10 Dec 2021 12:30:07: 33000000 INFO @ Fri, 10 Dec 2021 12:30:08: 43000000 INFO @ Fri, 10 Dec 2021 12:30:11: 34000000 INFO @ Fri, 10 Dec 2021 12:30:12: #1 tag size is determined as 42 bps INFO @ Fri, 10 Dec 2021 12:30:12: #1 tag size = 42 INFO @ Fri, 10 Dec 2021 12:30:12: #1 total tags in treatment: 18941907 INFO @ Fri, 10 Dec 2021 12:30:12: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:30:12: #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 12:30:13: 34000000 INFO @ Fri, 10 Dec 2021 12:30:13: #1 tags after filtering in treatment: 15892788 INFO @ Fri, 10 Dec 2021 12:30:13: #1 Redundant rate of treatment: 0.16 INFO @ Fri, 10 Dec 2021 12:30:13: #1 finished! INFO @ Fri, 10 Dec 2021 12:30:13: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:30:13: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:30:14: #2 number of paired peaks: 1773 INFO @ Fri, 10 Dec 2021 12:30:14: start model_add_line... INFO @ Fri, 10 Dec 2021 12:30:14: start X-correlation... INFO @ Fri, 10 Dec 2021 12:30:14: end of X-cor INFO @ Fri, 10 Dec 2021 12:30:14: #2 finished! INFO @ Fri, 10 Dec 2021 12:30:14: #2 predicted fragment length is 282 bps INFO @ Fri, 10 Dec 2021 12:30:14: #2 alternative fragment length(s) may be 282 bps INFO @ Fri, 10 Dec 2021 12:30:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.05_model.r INFO @ Fri, 10 Dec 2021 12:30:14: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:30:14: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:30:17: 35000000 INFO @ Fri, 10 Dec 2021 12:30:19: 35000000 INFO @ Fri, 10 Dec 2021 12:30:23: 36000000 INFO @ Fri, 10 Dec 2021 12:30:24: 36000000 INFO @ Fri, 10 Dec 2021 12:30:29: 37000000 INFO @ Fri, 10 Dec 2021 12:30:30: 37000000 INFO @ Fri, 10 Dec 2021 12:30:35: 38000000 INFO @ Fri, 10 Dec 2021 12:30:37: 38000000 INFO @ Fri, 10 Dec 2021 12:30:41: 39000000 INFO @ Fri, 10 Dec 2021 12:30:43: 39000000 INFO @ Fri, 10 Dec 2021 12:30:46: 40000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 12:30:49: 40000000 INFO @ Fri, 10 Dec 2021 12:30:52: 41000000 INFO @ Fri, 10 Dec 2021 12:30:54: 41000000 INFO @ Fri, 10 Dec 2021 12:30:58: 42000000 INFO @ Fri, 10 Dec 2021 12:30:59: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:31:00: 42000000 INFO @ Fri, 10 Dec 2021 12:31:04: 43000000 INFO @ Fri, 10 Dec 2021 12:31:05: 43000000 INFO @ Fri, 10 Dec 2021 12:31:09: #1 tag size is determined as 42 bps INFO @ Fri, 10 Dec 2021 12:31:09: #1 tag size = 42 INFO @ Fri, 10 Dec 2021 12:31:09: #1 total tags in treatment: 18941907 INFO @ Fri, 10 Dec 2021 12:31:09: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:31:09: #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 12:31:09: #1 tags after filtering in treatment: 15892788 INFO @ Fri, 10 Dec 2021 12:31:09: #1 Redundant rate of treatment: 0.16 INFO @ Fri, 10 Dec 2021 12:31:09: #1 finished! INFO @ Fri, 10 Dec 2021 12:31:09: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:31:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:31:10: #1 tag size is determined as 42 bps INFO @ Fri, 10 Dec 2021 12:31:10: #1 tag size = 42 INFO @ Fri, 10 Dec 2021 12:31:10: #1 total tags in treatment: 18941907 INFO @ Fri, 10 Dec 2021 12:31:10: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:31:10: #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 12:31:10: #1 tags after filtering in treatment: 15892788 INFO @ Fri, 10 Dec 2021 12:31:10: #1 Redundant rate of treatment: 0.16 INFO @ Fri, 10 Dec 2021 12:31:10: #1 finished! INFO @ Fri, 10 Dec 2021 12:31:10: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:31:10: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:31:10: #2 number of paired peaks: 1773 INFO @ Fri, 10 Dec 2021 12:31:10: start model_add_line... INFO @ Fri, 10 Dec 2021 12:31:10: start X-correlation... INFO @ Fri, 10 Dec 2021 12:31:10: end of X-cor INFO @ Fri, 10 Dec 2021 12:31:10: #2 finished! INFO @ Fri, 10 Dec 2021 12:31:10: #2 predicted fragment length is 282 bps INFO @ Fri, 10 Dec 2021 12:31:10: #2 alternative fragment length(s) may be 282 bps INFO @ Fri, 10 Dec 2021 12:31:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.20_model.r INFO @ Fri, 10 Dec 2021 12:31:10: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:31:10: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:31:11: #2 number of paired peaks: 1773 INFO @ Fri, 10 Dec 2021 12:31:11: start model_add_line... INFO @ Fri, 10 Dec 2021 12:31:11: start X-correlation... INFO @ Fri, 10 Dec 2021 12:31:11: end of X-cor INFO @ Fri, 10 Dec 2021 12:31:11: #2 finished! INFO @ Fri, 10 Dec 2021 12:31:11: #2 predicted fragment length is 282 bps INFO @ Fri, 10 Dec 2021 12:31:11: #2 alternative fragment length(s) may be 282 bps INFO @ Fri, 10 Dec 2021 12:31:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.10_model.r INFO @ Fri, 10 Dec 2021 12:31:11: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:31:11: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:31:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.05_peaks.xls INFO @ Fri, 10 Dec 2021 12:31:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:31:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.05_summits.bed INFO @ Fri, 10 Dec 2021 12:31:17: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (8253 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:31:55: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:31:56: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:32:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.20_peaks.xls INFO @ Fri, 10 Dec 2021 12:32:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:32:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.20_summits.bed INFO @ Fri, 10 Dec 2021 12:32:13: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (4284 records, 4 fields): 29 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:32:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.10_peaks.xls INFO @ Fri, 10 Dec 2021 12:32:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:32:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9047373/SRX9047373.10_summits.bed INFO @ Fri, 10 Dec 2021 12:32:14: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (6377 records, 4 fields): 11 millis CompletedMACS2peakCalling BigWig に変換しました。