Job ID = 16439737 SRX = SRX14894228 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2022-08-02T07:03:10 prefetch.2.10.7: 1) Downloading 'SRR18795793'... 2022-08-02T07:03:10 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T07:05:19 prefetch.2.10.7: HTTPS download succeed 2022-08-02T07:05:19 prefetch.2.10.7: 1) 'SRR18795793' was downloaded successfully 2022-08-02T07:05:19 prefetch.2.10.7: 'SRR18795793' has 0 unresolved dependencies Read 69728122 spots for SRR18795793/SRR18795793.sra Written 69728122 spots for SRR18795793/SRR18795793.sra fastq に変換しました。 bowtie でマッピング中... Your job 16440049 ("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: 00:29:28 69728122 reads; of these: 69728122 (100.00%) were unpaired; of these: 14220062 (20.39%) aligned 0 times 41162359 (59.03%) aligned exactly 1 time 14345701 (20.57%) aligned >1 times 79.61% overall alignment rate Time searching: 00:29:28 Overall time: 00:29:28 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 24 files... [bam_rmdupse_core] 34140986 / 55508060 = 0.6151 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:55:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.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 @ Tue, 02 Aug 2022 16:55:59: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:55:59: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:56:10: 1000000 INFO @ Tue, 02 Aug 2022 16:56:20: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:56:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.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 @ Tue, 02 Aug 2022 16:56:28: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:56:28: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:56:31: 3000000 INFO @ Tue, 02 Aug 2022 16:56:41: 1000000 INFO @ Tue, 02 Aug 2022 16:56:41: 4000000 INFO @ Tue, 02 Aug 2022 16:56:51: 5000000 INFO @ Tue, 02 Aug 2022 16:56:53: 2000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:56:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.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 @ Tue, 02 Aug 2022 16:56:58: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:56:58: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:57:02: 6000000 INFO @ Tue, 02 Aug 2022 16:57:05: 3000000 INFO @ Tue, 02 Aug 2022 16:57:09: 1000000 INFO @ Tue, 02 Aug 2022 16:57:13: 7000000 INFO @ Tue, 02 Aug 2022 16:57:17: 4000000 INFO @ Tue, 02 Aug 2022 16:57:20: 2000000 INFO @ Tue, 02 Aug 2022 16:57:23: 8000000 INFO @ Tue, 02 Aug 2022 16:57:29: 5000000 INFO @ Tue, 02 Aug 2022 16:57:32: 3000000 INFO @ Tue, 02 Aug 2022 16:57:34: 9000000 INFO @ Tue, 02 Aug 2022 16:57:40: 6000000 INFO @ Tue, 02 Aug 2022 16:57:43: 4000000 INFO @ Tue, 02 Aug 2022 16:57:45: 10000000 INFO @ Tue, 02 Aug 2022 16:57:51: 7000000 INFO @ Tue, 02 Aug 2022 16:57:54: 5000000 INFO @ Tue, 02 Aug 2022 16:57:56: 11000000 INFO @ Tue, 02 Aug 2022 16:58:02: 8000000 INFO @ Tue, 02 Aug 2022 16:58:05: 6000000 INFO @ Tue, 02 Aug 2022 16:58:07: 12000000 INFO @ Tue, 02 Aug 2022 16:58:14: 9000000 INFO @ Tue, 02 Aug 2022 16:58:15: 7000000 INFO @ Tue, 02 Aug 2022 16:58:18: 13000000 INFO @ Tue, 02 Aug 2022 16:58:25: 10000000 INFO @ Tue, 02 Aug 2022 16:58:26: 8000000 INFO @ Tue, 02 Aug 2022 16:58:28: 14000000 INFO @ Tue, 02 Aug 2022 16:58:37: 11000000 INFO @ Tue, 02 Aug 2022 16:58:37: 9000000 INFO @ Tue, 02 Aug 2022 16:58:40: 15000000 INFO @ Tue, 02 Aug 2022 16:58:47: 12000000 INFO @ Tue, 02 Aug 2022 16:58:48: 10000000 INFO @ Tue, 02 Aug 2022 16:58:50: 16000000 INFO @ Tue, 02 Aug 2022 16:58:57: 13000000 INFO @ Tue, 02 Aug 2022 16:58:59: 11000000 INFO @ Tue, 02 Aug 2022 16:59:01: 17000000 INFO @ Tue, 02 Aug 2022 16:59:09: 14000000 INFO @ Tue, 02 Aug 2022 16:59:10: 12000000 INFO @ Tue, 02 Aug 2022 16:59:12: 18000000 INFO @ Tue, 02 Aug 2022 16:59:20: 13000000 INFO @ Tue, 02 Aug 2022 16:59:20: 15000000 INFO @ Tue, 02 Aug 2022 16:59:23: 19000000 INFO @ Tue, 02 Aug 2022 16:59:31: 14000000 INFO @ Tue, 02 Aug 2022 16:59:32: 16000000 INFO @ Tue, 02 Aug 2022 16:59:33: 20000000 INFO @ Tue, 02 Aug 2022 16:59:42: 15000000 INFO @ Tue, 02 Aug 2022 16:59:43: 17000000 INFO @ Tue, 02 Aug 2022 16:59:45: 21000000 INFO @ Tue, 02 Aug 2022 16:59:50: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:59:50: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:59:50: #1 total tags in treatment: 21367074 INFO @ Tue, 02 Aug 2022 16:59:50: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:59:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 16:59:50: #1 tags after filtering in treatment: 21367074 INFO @ Tue, 02 Aug 2022 16:59:50: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:59:50: #1 finished! INFO @ Tue, 02 Aug 2022 16:59:50: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:59:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:59:52: 16000000 INFO @ Tue, 02 Aug 2022 16:59:53: #2 number of paired peaks: 1082 INFO @ Tue, 02 Aug 2022 16:59:53: start model_add_line... INFO @ Tue, 02 Aug 2022 16:59:53: start X-correlation... INFO @ Tue, 02 Aug 2022 16:59:53: end of X-cor INFO @ Tue, 02 Aug 2022 16:59:53: #2 finished! INFO @ Tue, 02 Aug 2022 16:59:53: #2 predicted fragment length is 110 bps INFO @ Tue, 02 Aug 2022 16:59:53: #2 alternative fragment length(s) may be 2,110 bps INFO @ Tue, 02 Aug 2022 16:59:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.05_model.r INFO @ Tue, 02 Aug 2022 16:59:53: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:59:53: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:59:54: 18000000 INFO @ Tue, 02 Aug 2022 17:00:03: 17000000 INFO @ Tue, 02 Aug 2022 17:00:06: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 17:00:14: 18000000 INFO @ Tue, 02 Aug 2022 17:00:18: 20000000 INFO @ Tue, 02 Aug 2022 17:00:25: 19000000 INFO @ Tue, 02 Aug 2022 17:00:30: 21000000 INFO @ Tue, 02 Aug 2022 17:00:34: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 17:00:34: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 17:00:34: #1 total tags in treatment: 21367074 INFO @ Tue, 02 Aug 2022 17:00:34: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 17:00:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 17:00:35: #1 tags after filtering in treatment: 21367074 INFO @ Tue, 02 Aug 2022 17:00:35: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 17:00:35: #1 finished! INFO @ Tue, 02 Aug 2022 17:00:35: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 17:00:35: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 17:00:37: 20000000 INFO @ Tue, 02 Aug 2022 17:00:37: #2 number of paired peaks: 1082 INFO @ Tue, 02 Aug 2022 17:00:37: start model_add_line... INFO @ Tue, 02 Aug 2022 17:00:37: start X-correlation... INFO @ Tue, 02 Aug 2022 17:00:37: end of X-cor INFO @ Tue, 02 Aug 2022 17:00:37: #2 finished! INFO @ Tue, 02 Aug 2022 17:00:37: #2 predicted fragment length is 110 bps INFO @ Tue, 02 Aug 2022 17:00:37: #2 alternative fragment length(s) may be 2,110 bps INFO @ Tue, 02 Aug 2022 17:00:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.10_model.r INFO @ Tue, 02 Aug 2022 17:00:37: #3 Call peaks... INFO @ Tue, 02 Aug 2022 17:00:37: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 17:00:48: 21000000 INFO @ Tue, 02 Aug 2022 17:00:52: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 17:00:52: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 17:00:52: #1 total tags in treatment: 21367074 INFO @ Tue, 02 Aug 2022 17:00:52: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 17:00:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 17:00:52: #1 tags after filtering in treatment: 21367074 INFO @ Tue, 02 Aug 2022 17:00:52: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 17:00:52: #1 finished! INFO @ Tue, 02 Aug 2022 17:00:52: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 17:00:52: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 17:00:55: #2 number of paired peaks: 1082 INFO @ Tue, 02 Aug 2022 17:00:55: start model_add_line... INFO @ Tue, 02 Aug 2022 17:00:55: start X-correlation... INFO @ Tue, 02 Aug 2022 17:00:55: end of X-cor INFO @ Tue, 02 Aug 2022 17:00:55: #2 finished! INFO @ Tue, 02 Aug 2022 17:00:55: #2 predicted fragment length is 110 bps INFO @ Tue, 02 Aug 2022 17:00:55: #2 alternative fragment length(s) may be 2,110 bps INFO @ Tue, 02 Aug 2022 17:00:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.20_model.r INFO @ Tue, 02 Aug 2022 17:00:55: #3 Call peaks... INFO @ Tue, 02 Aug 2022 17:00:55: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 17:01:01: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 17:01:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.05_peaks.xls INFO @ Tue, 02 Aug 2022 17:01:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 17:01:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.05_summits.bed INFO @ Tue, 02 Aug 2022 17:01:36: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (6196 records, 4 fields): 44 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 17:01:39: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 17:02:01: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 17:02:11: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.10_peaks.xls INFO @ Tue, 02 Aug 2022 17:02:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 17:02:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.10_summits.bed INFO @ Tue, 02 Aug 2022 17:02:11: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (2988 records, 4 fields): 35 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 17:02:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.20_peaks.xls INFO @ Tue, 02 Aug 2022 17:02:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 17:02:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX14894228/SRX14894228.20_summits.bed INFO @ Tue, 02 Aug 2022 17:02:34: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (1576 records, 4 fields): 27 millis CompletedMACS2peakCalling