Job ID = 14172132 SRX = SRX7628916 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 17157171 spots for SRR10963278/SRR10963278.sra Written 17157171 spots for SRR10963278/SRR10963278.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172668 ("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: 00:24:57 17157171 reads; of these: 17157171 (100.00%) were paired; of these: 1192561 (6.95%) aligned concordantly 0 times 12230867 (71.29%) aligned concordantly exactly 1 time 3733743 (21.76%) aligned concordantly >1 times ---- 1192561 pairs aligned concordantly 0 times; of these: 121867 (10.22%) aligned discordantly 1 time ---- 1070694 pairs aligned 0 times concordantly or discordantly; of these: 2141388 mates make up the pairs; of these: 1324986 (61.88%) aligned 0 times 475722 (22.22%) aligned exactly 1 time 340680 (15.91%) aligned >1 times 96.14% overall alignment rate Time searching: 00:24:58 Overall time: 00:24:58 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] 990493 / 16078803 = 0.0616 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 @ Sat, 11 Dec 2021 14:57:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.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, 11 Dec 2021 14:57:28: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:57:28: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:57:34: 1000000 INFO @ Sat, 11 Dec 2021 14:57:39: 2000000 INFO @ Sat, 11 Dec 2021 14:57:44: 3000000 INFO @ Sat, 11 Dec 2021 14:57:49: 4000000 INFO @ Sat, 11 Dec 2021 14:57:54: 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 @ Sat, 11 Dec 2021 14:57:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.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, 11 Dec 2021 14:57:58: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:57:58: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:58:00: 6000000 INFO @ Sat, 11 Dec 2021 14:58:03: 1000000 INFO @ Sat, 11 Dec 2021 14:58:05: 7000000 INFO @ Sat, 11 Dec 2021 14:58:09: 2000000 INFO @ Sat, 11 Dec 2021 14:58:11: 8000000 INFO @ Sat, 11 Dec 2021 14:58:14: 3000000 INFO @ Sat, 11 Dec 2021 14:58:17: 9000000 INFO @ Sat, 11 Dec 2021 14:58:19: 4000000 INFO @ Sat, 11 Dec 2021 14:58:23: 10000000 INFO @ Sat, 11 Dec 2021 14:58:25: 5000000 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 @ Sat, 11 Dec 2021 14:58:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.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, 11 Dec 2021 14:58:28: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:58:28: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:58:28: 11000000 INFO @ Sat, 11 Dec 2021 14:58:30: 6000000 INFO @ Sat, 11 Dec 2021 14:58:34: 1000000 INFO @ Sat, 11 Dec 2021 14:58:34: 12000000 INFO @ Sat, 11 Dec 2021 14:58:36: 7000000 INFO @ Sat, 11 Dec 2021 14:58:39: 2000000 INFO @ Sat, 11 Dec 2021 14:58:40: 13000000 INFO @ Sat, 11 Dec 2021 14:58:41: 8000000 INFO @ Sat, 11 Dec 2021 14:58:45: 3000000 INFO @ Sat, 11 Dec 2021 14:58:46: 14000000 INFO @ Sat, 11 Dec 2021 14:58:47: 9000000 INFO @ Sat, 11 Dec 2021 14:58:50: 4000000 INFO @ Sat, 11 Dec 2021 14:58:52: 15000000 INFO @ Sat, 11 Dec 2021 14:58:52: 10000000 INFO @ Sat, 11 Dec 2021 14:58:56: 5000000 INFO @ Sat, 11 Dec 2021 14:58:58: 16000000 INFO @ Sat, 11 Dec 2021 14:58:58: 11000000 INFO @ Sat, 11 Dec 2021 14:59:01: 6000000 INFO @ Sat, 11 Dec 2021 14:59:03: 12000000 INFO @ Sat, 11 Dec 2021 14:59:03: 17000000 INFO @ Sat, 11 Dec 2021 14:59:06: 7000000 INFO @ Sat, 11 Dec 2021 14:59:09: 13000000 INFO @ Sat, 11 Dec 2021 14:59:09: 18000000 INFO @ Sat, 11 Dec 2021 14:59:12: 8000000 INFO @ Sat, 11 Dec 2021 14:59:14: 14000000 INFO @ Sat, 11 Dec 2021 14:59:15: 19000000 INFO @ Sat, 11 Dec 2021 14:59:17: 9000000 INFO @ Sat, 11 Dec 2021 14:59:20: 15000000 INFO @ Sat, 11 Dec 2021 14:59:21: 20000000 INFO @ Sat, 11 Dec 2021 14:59:23: 10000000 INFO @ Sat, 11 Dec 2021 14:59:25: 16000000 INFO @ Sat, 11 Dec 2021 14:59:27: 21000000 INFO @ Sat, 11 Dec 2021 14:59:28: 11000000 INFO @ Sat, 11 Dec 2021 14:59:31: 17000000 INFO @ Sat, 11 Dec 2021 14:59:33: 22000000 INFO @ Sat, 11 Dec 2021 14:59:34: 12000000 INFO @ Sat, 11 Dec 2021 14:59:37: 18000000 INFO @ Sat, 11 Dec 2021 14:59:39: 23000000 INFO @ Sat, 11 Dec 2021 14:59:40: 13000000 INFO @ Sat, 11 Dec 2021 14:59:42: 19000000 INFO @ Sat, 11 Dec 2021 14:59:45: 24000000 INFO @ Sat, 11 Dec 2021 14:59:45: 14000000 INFO @ Sat, 11 Dec 2021 14:59:48: 20000000 INFO @ Sat, 11 Dec 2021 14:59:51: 15000000 INFO @ Sat, 11 Dec 2021 14:59:51: 25000000 INFO @ Sat, 11 Dec 2021 14:59:53: 21000000 INFO @ Sat, 11 Dec 2021 14:59:56: 16000000 INFO @ Sat, 11 Dec 2021 14:59:57: 26000000 INFO @ Sat, 11 Dec 2021 14:59:59: 22000000 INFO @ Sat, 11 Dec 2021 15:00:02: 17000000 INFO @ Sat, 11 Dec 2021 15:00:03: 27000000 INFO @ Sat, 11 Dec 2021 15:00:05: 23000000 INFO @ Sat, 11 Dec 2021 15:00:07: 18000000 INFO @ Sat, 11 Dec 2021 15:00:09: 28000000 INFO @ Sat, 11 Dec 2021 15:00:11: 24000000 INFO @ Sat, 11 Dec 2021 15:00:13: 19000000 INFO @ Sat, 11 Dec 2021 15:00:15: 29000000 INFO @ Sat, 11 Dec 2021 15:00:17: 25000000 INFO @ Sat, 11 Dec 2021 15:00:18: 20000000 INFO @ Sat, 11 Dec 2021 15:00:21: 30000000 INFO @ Sat, 11 Dec 2021 15:00:22: 26000000 INFO @ Sat, 11 Dec 2021 15:00:23: 21000000 INFO @ Sat, 11 Dec 2021 15:00:27: 31000000 INFO @ Sat, 11 Dec 2021 15:00:27: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 15:00:27: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 15:00:27: #1 total tags in treatment: 14977401 INFO @ Sat, 11 Dec 2021 15:00:27: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:00:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:00:27: #1 tags after filtering in treatment: 13832356 INFO @ Sat, 11 Dec 2021 15:00:27: #1 Redundant rate of treatment: 0.08 INFO @ Sat, 11 Dec 2021 15:00:27: #1 finished! INFO @ Sat, 11 Dec 2021 15:00:27: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:00:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:00:28: #2 number of paired peaks: 1594 INFO @ Sat, 11 Dec 2021 15:00:28: start model_add_line... INFO @ Sat, 11 Dec 2021 15:00:28: start X-correlation... INFO @ Sat, 11 Dec 2021 15:00:28: end of X-cor INFO @ Sat, 11 Dec 2021 15:00:28: #2 finished! INFO @ Sat, 11 Dec 2021 15:00:28: #2 predicted fragment length is 167 bps INFO @ Sat, 11 Dec 2021 15:00:28: #2 alternative fragment length(s) may be 4,167 bps INFO @ Sat, 11 Dec 2021 15:00:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.05_model.r INFO @ Sat, 11 Dec 2021 15:00:28: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:00:28: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:00:28: 27000000 INFO @ Sat, 11 Dec 2021 15:00:29: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:00:34: 23000000 INFO @ Sat, 11 Dec 2021 15:00:34: 28000000 INFO @ Sat, 11 Dec 2021 15:00:39: 24000000 INFO @ Sat, 11 Dec 2021 15:00:40: 29000000 INFO @ Sat, 11 Dec 2021 15:00:45: 25000000 INFO @ Sat, 11 Dec 2021 15:00:46: 30000000 INFO @ Sat, 11 Dec 2021 15:00:50: 26000000 INFO @ Sat, 11 Dec 2021 15:00:51: 31000000 INFO @ Sat, 11 Dec 2021 15:00:51: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 15:00:51: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 15:00:51: #1 total tags in treatment: 14977401 INFO @ Sat, 11 Dec 2021 15:00:51: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:00:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:00:52: #1 tags after filtering in treatment: 13832356 INFO @ Sat, 11 Dec 2021 15:00:52: #1 Redundant rate of treatment: 0.08 INFO @ Sat, 11 Dec 2021 15:00:52: #1 finished! INFO @ Sat, 11 Dec 2021 15:00:52: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:00:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:00:53: #2 number of paired peaks: 1594 INFO @ Sat, 11 Dec 2021 15:00:53: start model_add_line... INFO @ Sat, 11 Dec 2021 15:00:53: start X-correlation... INFO @ Sat, 11 Dec 2021 15:00:53: end of X-cor INFO @ Sat, 11 Dec 2021 15:00:53: #2 finished! INFO @ Sat, 11 Dec 2021 15:00:53: #2 predicted fragment length is 167 bps INFO @ Sat, 11 Dec 2021 15:00:53: #2 alternative fragment length(s) may be 4,167 bps INFO @ Sat, 11 Dec 2021 15:00:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.10_model.r INFO @ Sat, 11 Dec 2021 15:00:53: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:00:53: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:00:55: 27000000 INFO @ Sat, 11 Dec 2021 15:00:58: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:01:00: 28000000 INFO @ Sat, 11 Dec 2021 15:01:05: 29000000 INFO @ Sat, 11 Dec 2021 15:01:10: 30000000 INFO @ Sat, 11 Dec 2021 15:01:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:01:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:01:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.05_summits.bed INFO @ Sat, 11 Dec 2021 15:01:12: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (2892 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:01:14: 31000000 INFO @ Sat, 11 Dec 2021 15:01:14: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 15:01:14: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 15:01:14: #1 total tags in treatment: 14977401 INFO @ Sat, 11 Dec 2021 15:01:14: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:01:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:01:15: #1 tags after filtering in treatment: 13832356 INFO @ Sat, 11 Dec 2021 15:01:15: #1 Redundant rate of treatment: 0.08 INFO @ Sat, 11 Dec 2021 15:01:15: #1 finished! INFO @ Sat, 11 Dec 2021 15:01:15: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:01:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:01:16: #2 number of paired peaks: 1594 INFO @ Sat, 11 Dec 2021 15:01:16: start model_add_line... INFO @ Sat, 11 Dec 2021 15:01:16: start X-correlation... INFO @ Sat, 11 Dec 2021 15:01:16: end of X-cor INFO @ Sat, 11 Dec 2021 15:01:16: #2 finished! INFO @ Sat, 11 Dec 2021 15:01:16: #2 predicted fragment length is 167 bps INFO @ Sat, 11 Dec 2021 15:01:16: #2 alternative fragment length(s) may be 4,167 bps INFO @ Sat, 11 Dec 2021 15:01:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.20_model.r INFO @ Sat, 11 Dec 2021 15:01:16: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:01:16: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:01:22: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:01:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:01:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:01:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.10_summits.bed INFO @ Sat, 11 Dec 2021 15:01:36: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (1680 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:01:45: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:01:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:01:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:01:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628916/SRX7628916.20_summits.bed INFO @ Sat, 11 Dec 2021 15:01:59: Done! pass1 - making usageList (15 chroms): 0 millis pass2 - checking and writing primary data (953 records, 4 fields): 3 millis CompletedMACS2peakCalling