Job ID = 14170753 SRX = SRX9434490 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 22865936 spots for SRR12982888/SRR12982888.sra Written 22865936 spots for SRR12982888/SRR12982888.sra fastq に変換しました。 bowtie でマッピング中... Your job 14171524 ("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: 01:07:57 22865936 reads; of these: 22865936 (100.00%) were paired; of these: 1680326 (7.35%) aligned concordantly 0 times 9621257 (42.08%) aligned concordantly exactly 1 time 11564353 (50.57%) aligned concordantly >1 times ---- 1680326 pairs aligned concordantly 0 times; of these: 211583 (12.59%) aligned discordantly 1 time ---- 1468743 pairs aligned 0 times concordantly or discordantly; of these: 2937486 mates make up the pairs; of these: 1479874 (50.38%) aligned 0 times 343948 (11.71%) aligned exactly 1 time 1113664 (37.91%) aligned >1 times 96.76% overall alignment rate Time searching: 01:07:57 Overall time: 01:07:57 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] 1520944 / 21381375 = 0.0711 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 09:41:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.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 09:41:38: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:41:38: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:41:44: 1000000 INFO @ Sat, 11 Dec 2021 09:41:49: 2000000 INFO @ Sat, 11 Dec 2021 09:41:54: 3000000 INFO @ Sat, 11 Dec 2021 09:41:59: 4000000 INFO @ Sat, 11 Dec 2021 09:42:04: 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 09:42:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.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 09:42:08: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:42:08: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:42:09: 6000000 INFO @ Sat, 11 Dec 2021 09:42:14: 1000000 INFO @ Sat, 11 Dec 2021 09:42:15: 7000000 INFO @ Sat, 11 Dec 2021 09:42:20: 2000000 INFO @ Sat, 11 Dec 2021 09:42:21: 8000000 INFO @ Sat, 11 Dec 2021 09:42:26: 3000000 INFO @ Sat, 11 Dec 2021 09:42:27: 9000000 INFO @ Sat, 11 Dec 2021 09:42:32: 4000000 INFO @ Sat, 11 Dec 2021 09:42:33: 10000000 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 09:42:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.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 09:42:38: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:42:38: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:42:38: 5000000 INFO @ Sat, 11 Dec 2021 09:42:39: 11000000 INFO @ Sat, 11 Dec 2021 09:42:44: 6000000 INFO @ Sat, 11 Dec 2021 09:42:44: 1000000 INFO @ Sat, 11 Dec 2021 09:42:46: 12000000 INFO @ Sat, 11 Dec 2021 09:42:50: 7000000 INFO @ Sat, 11 Dec 2021 09:42:50: 2000000 INFO @ Sat, 11 Dec 2021 09:42:52: 13000000 INFO @ Sat, 11 Dec 2021 09:42:56: 8000000 INFO @ Sat, 11 Dec 2021 09:42:57: 3000000 INFO @ Sat, 11 Dec 2021 09:42:58: 14000000 INFO @ Sat, 11 Dec 2021 09:43:03: 9000000 INFO @ Sat, 11 Dec 2021 09:43:03: 4000000 INFO @ Sat, 11 Dec 2021 09:43:04: 15000000 INFO @ Sat, 11 Dec 2021 09:43:09: 10000000 INFO @ Sat, 11 Dec 2021 09:43:09: 5000000 INFO @ Sat, 11 Dec 2021 09:43:10: 16000000 INFO @ Sat, 11 Dec 2021 09:43:15: 11000000 INFO @ Sat, 11 Dec 2021 09:43:15: 6000000 INFO @ Sat, 11 Dec 2021 09:43:16: 17000000 INFO @ Sat, 11 Dec 2021 09:43:21: 12000000 INFO @ Sat, 11 Dec 2021 09:43:21: 7000000 INFO @ Sat, 11 Dec 2021 09:43:22: 18000000 INFO @ Sat, 11 Dec 2021 09:43:27: 13000000 INFO @ Sat, 11 Dec 2021 09:43:27: 8000000 INFO @ Sat, 11 Dec 2021 09:43:29: 19000000 INFO @ Sat, 11 Dec 2021 09:43:34: 14000000 INFO @ Sat, 11 Dec 2021 09:43:34: 9000000 INFO @ Sat, 11 Dec 2021 09:43:35: 20000000 INFO @ Sat, 11 Dec 2021 09:43:40: 10000000 INFO @ Sat, 11 Dec 2021 09:43:40: 15000000 INFO @ Sat, 11 Dec 2021 09:43:41: 21000000 INFO @ Sat, 11 Dec 2021 09:43:46: 11000000 INFO @ Sat, 11 Dec 2021 09:43:46: 16000000 INFO @ Sat, 11 Dec 2021 09:43:47: 22000000 INFO @ Sat, 11 Dec 2021 09:43:52: 12000000 INFO @ Sat, 11 Dec 2021 09:43:52: 17000000 INFO @ Sat, 11 Dec 2021 09:43:53: 23000000 INFO @ Sat, 11 Dec 2021 09:43:58: 18000000 INFO @ Sat, 11 Dec 2021 09:43:58: 13000000 INFO @ Sat, 11 Dec 2021 09:43:59: 24000000 INFO @ Sat, 11 Dec 2021 09:44:05: 19000000 INFO @ Sat, 11 Dec 2021 09:44:05: 14000000 INFO @ Sat, 11 Dec 2021 09:44:05: 25000000 INFO @ Sat, 11 Dec 2021 09:44:11: 20000000 INFO @ Sat, 11 Dec 2021 09:44:11: 15000000 INFO @ Sat, 11 Dec 2021 09:44:12: 26000000 INFO @ Sat, 11 Dec 2021 09:44:17: 21000000 INFO @ Sat, 11 Dec 2021 09:44:17: 16000000 INFO @ Sat, 11 Dec 2021 09:44:18: 27000000 INFO @ Sat, 11 Dec 2021 09:44:23: 22000000 INFO @ Sat, 11 Dec 2021 09:44:23: 17000000 INFO @ Sat, 11 Dec 2021 09:44:24: 28000000 INFO @ Sat, 11 Dec 2021 09:44:29: 23000000 INFO @ Sat, 11 Dec 2021 09:44:30: 18000000 INFO @ Sat, 11 Dec 2021 09:44:30: 29000000 INFO @ Sat, 11 Dec 2021 09:44:36: 24000000 INFO @ Sat, 11 Dec 2021 09:44:36: 19000000 INFO @ Sat, 11 Dec 2021 09:44:36: 30000000 INFO @ Sat, 11 Dec 2021 09:44:42: 25000000 INFO @ Sat, 11 Dec 2021 09:44:42: 20000000 INFO @ Sat, 11 Dec 2021 09:44:42: 31000000 INFO @ Sat, 11 Dec 2021 09:44:48: 26000000 INFO @ Sat, 11 Dec 2021 09:44:48: 21000000 INFO @ Sat, 11 Dec 2021 09:44:49: 32000000 INFO @ Sat, 11 Dec 2021 09:44:54: 27000000 INFO @ Sat, 11 Dec 2021 09:44:54: 22000000 INFO @ Sat, 11 Dec 2021 09:44:55: 33000000 INFO @ Sat, 11 Dec 2021 09:45:01: 28000000 INFO @ Sat, 11 Dec 2021 09:45:01: 23000000 INFO @ Sat, 11 Dec 2021 09:45:01: 34000000 INFO @ Sat, 11 Dec 2021 09:45:07: 24000000 INFO @ Sat, 11 Dec 2021 09:45:07: 29000000 INFO @ Sat, 11 Dec 2021 09:45:07: 35000000 INFO @ Sat, 11 Dec 2021 09:45:13: 36000000 INFO @ Sat, 11 Dec 2021 09:45:14: 25000000 INFO @ Sat, 11 Dec 2021 09:45:14: 30000000 INFO @ Sat, 11 Dec 2021 09:45:19: 37000000 INFO @ Sat, 11 Dec 2021 09:45:20: 26000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 09:45:21: 31000000 INFO @ Sat, 11 Dec 2021 09:45:26: 38000000 INFO @ Sat, 11 Dec 2021 09:45:26: 27000000 INFO @ Sat, 11 Dec 2021 09:45:29: 32000000 INFO @ Sat, 11 Dec 2021 09:45:32: 39000000 INFO @ Sat, 11 Dec 2021 09:45:33: 28000000 INFO @ Sat, 11 Dec 2021 09:45:36: 33000000 INFO @ Sat, 11 Dec 2021 09:45:38: 40000000 INFO @ Sat, 11 Dec 2021 09:45:39: 29000000 INFO @ Sat, 11 Dec 2021 09:45:42: 34000000 INFO @ Sat, 11 Dec 2021 09:45:45: 41000000 INFO @ Sat, 11 Dec 2021 09:45:46: 30000000 INFO @ Sat, 11 Dec 2021 09:45:46: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:45:46: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:45:46: #1 total tags in treatment: 19682025 INFO @ Sat, 11 Dec 2021 09:45:46: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:45:46: #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 09:45:46: #1 tags after filtering in treatment: 16792396 INFO @ Sat, 11 Dec 2021 09:45:46: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 11 Dec 2021 09:45:46: #1 finished! INFO @ Sat, 11 Dec 2021 09:45:46: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:45:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:45:48: #2 number of paired peaks: 3613 INFO @ Sat, 11 Dec 2021 09:45:48: start model_add_line... INFO @ Sat, 11 Dec 2021 09:45:48: start X-correlation... INFO @ Sat, 11 Dec 2021 09:45:48: end of X-cor INFO @ Sat, 11 Dec 2021 09:45:48: #2 finished! INFO @ Sat, 11 Dec 2021 09:45:48: #2 predicted fragment length is 184 bps INFO @ Sat, 11 Dec 2021 09:45:48: #2 alternative fragment length(s) may be 184 bps INFO @ Sat, 11 Dec 2021 09:45:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.05_model.r INFO @ Sat, 11 Dec 2021 09:45:48: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:45:48: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:45:48: 35000000 INFO @ Sat, 11 Dec 2021 09:45:51: 31000000 INFO @ Sat, 11 Dec 2021 09:45:54: 36000000 INFO @ Sat, 11 Dec 2021 09:45:57: 32000000 INFO @ Sat, 11 Dec 2021 09:45:59: 37000000 INFO @ Sat, 11 Dec 2021 09:46:02: 33000000 INFO @ Sat, 11 Dec 2021 09:46:05: 38000000 INFO @ Sat, 11 Dec 2021 09:46:07: 34000000 INFO @ Sat, 11 Dec 2021 09:46:10: 39000000 INFO @ Sat, 11 Dec 2021 09:46:13: 35000000 INFO @ Sat, 11 Dec 2021 09:46:16: 40000000 INFO @ Sat, 11 Dec 2021 09:46:18: 36000000 INFO @ Sat, 11 Dec 2021 09:46:22: 41000000 INFO @ Sat, 11 Dec 2021 09:46:23: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:46:23: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:46:23: #1 total tags in treatment: 19682025 INFO @ Sat, 11 Dec 2021 09:46:23: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:46:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 09:46:23: #1 tags after filtering in treatment: 16792396 INFO @ Sat, 11 Dec 2021 09:46:23: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 11 Dec 2021 09:46:23: #1 finished! INFO @ Sat, 11 Dec 2021 09:46:23: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:46:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:46:24: 37000000 INFO @ Sat, 11 Dec 2021 09:46:25: #2 number of paired peaks: 3613 INFO @ Sat, 11 Dec 2021 09:46:25: start model_add_line... INFO @ Sat, 11 Dec 2021 09:46:25: start X-correlation... INFO @ Sat, 11 Dec 2021 09:46:25: end of X-cor INFO @ Sat, 11 Dec 2021 09:46:25: #2 finished! INFO @ Sat, 11 Dec 2021 09:46:25: #2 predicted fragment length is 184 bps INFO @ Sat, 11 Dec 2021 09:46:25: #2 alternative fragment length(s) may be 184 bps INFO @ Sat, 11 Dec 2021 09:46:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.10_model.r INFO @ Sat, 11 Dec 2021 09:46:25: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:46:25: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:46:29: 38000000 INFO @ Sat, 11 Dec 2021 09:46:29: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:46:35: 39000000 INFO @ Sat, 11 Dec 2021 09:46:40: 40000000 INFO @ Sat, 11 Dec 2021 09:46:46: 41000000 INFO @ Sat, 11 Dec 2021 09:46:47: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:46:47: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:46:47: #1 total tags in treatment: 19682025 INFO @ Sat, 11 Dec 2021 09:46:47: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:46:47: #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 09:46:48: #1 tags after filtering in treatment: 16792396 INFO @ Sat, 11 Dec 2021 09:46:48: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 11 Dec 2021 09:46:48: #1 finished! INFO @ Sat, 11 Dec 2021 09:46:48: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:46:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:46:49: #2 number of paired peaks: 3613 INFO @ Sat, 11 Dec 2021 09:46:49: start model_add_line... INFO @ Sat, 11 Dec 2021 09:46:49: start X-correlation... INFO @ Sat, 11 Dec 2021 09:46:49: end of X-cor INFO @ Sat, 11 Dec 2021 09:46:49: #2 finished! INFO @ Sat, 11 Dec 2021 09:46:49: #2 predicted fragment length is 184 bps INFO @ Sat, 11 Dec 2021 09:46:49: #2 alternative fragment length(s) may be 184 bps INFO @ Sat, 11 Dec 2021 09:46:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.20_model.r INFO @ Sat, 11 Dec 2021 09:46:49: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:46:49: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:46:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.05_peaks.xls INFO @ Sat, 11 Dec 2021 09:46:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:46:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.05_summits.bed INFO @ Sat, 11 Dec 2021 09:46:50: Done! pass1 - making usageList (14 chroms): 3 millis pass2 - checking and writing primary data (16739 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 09:47:05: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:47:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.10_peaks.xls INFO @ Sat, 11 Dec 2021 09:47:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:47:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.10_summits.bed INFO @ Sat, 11 Dec 2021 09:47:25: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (10834 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 09:47:30: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:47:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.20_peaks.xls INFO @ Sat, 11 Dec 2021 09:47:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:47:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434490/SRX9434490.20_summits.bed INFO @ Sat, 11 Dec 2021 09:47:49: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (5666 records, 4 fields): 6 millis CompletedMACS2peakCalling