Job ID = 14167407 SRX = SRX8574265 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:14:20 53469092 reads; of these: 53469092 (100.00%) were unpaired; of these: 9066814 (16.96%) aligned 0 times 31469063 (58.85%) aligned exactly 1 time 12933215 (24.19%) aligned >1 times 83.04% overall alignment rate Time searching: 00:14:21 Overall time: 00:14:21 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 20 files... [bam_rmdupse_core] 17121813 / 44402278 = 0.3856 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 12:30:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.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 12:30:57: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:30:57: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:31:03: 1000000 INFO @ Fri, 10 Dec 2021 12:31:10: 2000000 INFO @ Fri, 10 Dec 2021 12:31:17: 3000000 INFO @ Fri, 10 Dec 2021 12:31:24: 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 12:31:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.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 12:31:26: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:31:26: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:31:30: 5000000 INFO @ Fri, 10 Dec 2021 12:31:31: 1000000 INFO @ Fri, 10 Dec 2021 12:31:36: 2000000 INFO @ Fri, 10 Dec 2021 12:31:37: 6000000 INFO @ Fri, 10 Dec 2021 12:31:41: 3000000 INFO @ Fri, 10 Dec 2021 12:31:44: 7000000 INFO @ Fri, 10 Dec 2021 12:31:46: 4000000 INFO @ Fri, 10 Dec 2021 12:31:51: 5000000 INFO @ Fri, 10 Dec 2021 12:31:52: 8000000 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 @ Fri, 10 Dec 2021 12:31:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.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 12:31:56: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:31:56: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:31:56: 6000000 INFO @ Fri, 10 Dec 2021 12:31:59: 9000000 INFO @ Fri, 10 Dec 2021 12:32:02: 1000000 INFO @ Fri, 10 Dec 2021 12:32:02: 7000000 INFO @ Fri, 10 Dec 2021 12:32:07: 10000000 INFO @ Fri, 10 Dec 2021 12:32:07: 2000000 INFO @ Fri, 10 Dec 2021 12:32:07: 8000000 INFO @ Fri, 10 Dec 2021 12:32:12: 3000000 INFO @ Fri, 10 Dec 2021 12:32:12: 9000000 INFO @ Fri, 10 Dec 2021 12:32:14: 11000000 INFO @ Fri, 10 Dec 2021 12:32:17: 4000000 INFO @ Fri, 10 Dec 2021 12:32:17: 10000000 INFO @ Fri, 10 Dec 2021 12:32:21: 12000000 INFO @ Fri, 10 Dec 2021 12:32:23: 11000000 INFO @ Fri, 10 Dec 2021 12:32:23: 5000000 INFO @ Fri, 10 Dec 2021 12:32:28: 12000000 INFO @ Fri, 10 Dec 2021 12:32:28: 6000000 INFO @ Fri, 10 Dec 2021 12:32:28: 13000000 INFO @ Fri, 10 Dec 2021 12:32:33: 13000000 INFO @ Fri, 10 Dec 2021 12:32:33: 7000000 INFO @ Fri, 10 Dec 2021 12:32:35: 14000000 INFO @ Fri, 10 Dec 2021 12:32:38: 14000000 INFO @ Fri, 10 Dec 2021 12:32:38: 8000000 INFO @ Fri, 10 Dec 2021 12:32:42: 15000000 INFO @ Fri, 10 Dec 2021 12:32:43: 15000000 INFO @ Fri, 10 Dec 2021 12:32:43: 9000000 INFO @ Fri, 10 Dec 2021 12:32:49: 10000000 INFO @ Fri, 10 Dec 2021 12:32:49: 16000000 INFO @ Fri, 10 Dec 2021 12:32:49: 16000000 INFO @ Fri, 10 Dec 2021 12:32:54: 11000000 INFO @ Fri, 10 Dec 2021 12:32:55: 17000000 INFO @ Fri, 10 Dec 2021 12:32:56: 17000000 INFO @ Fri, 10 Dec 2021 12:32:59: 12000000 INFO @ Fri, 10 Dec 2021 12:33:00: 18000000 INFO @ Fri, 10 Dec 2021 12:33:03: 18000000 INFO @ Fri, 10 Dec 2021 12:33:04: 13000000 INFO @ Fri, 10 Dec 2021 12:33:05: 19000000 INFO @ Fri, 10 Dec 2021 12:33:09: 14000000 INFO @ Fri, 10 Dec 2021 12:33:10: 19000000 INFO @ Fri, 10 Dec 2021 12:33:10: 20000000 INFO @ Fri, 10 Dec 2021 12:33:14: 15000000 INFO @ Fri, 10 Dec 2021 12:33:15: 21000000 INFO @ Fri, 10 Dec 2021 12:33:17: 20000000 INFO @ Fri, 10 Dec 2021 12:33:19: 16000000 INFO @ Fri, 10 Dec 2021 12:33:21: 22000000 INFO @ Fri, 10 Dec 2021 12:33:23: 21000000 INFO @ Fri, 10 Dec 2021 12:33:24: 17000000 INFO @ Fri, 10 Dec 2021 12:33:26: 23000000 INFO @ Fri, 10 Dec 2021 12:33:29: 18000000 INFO @ Fri, 10 Dec 2021 12:33:30: 22000000 INFO @ Fri, 10 Dec 2021 12:33:31: 24000000 INFO @ Fri, 10 Dec 2021 12:33:34: 19000000 INFO @ Fri, 10 Dec 2021 12:33:37: 25000000 INFO @ Fri, 10 Dec 2021 12:33:37: 23000000 INFO @ Fri, 10 Dec 2021 12:33:40: 20000000 INFO @ Fri, 10 Dec 2021 12:33:42: 26000000 INFO @ Fri, 10 Dec 2021 12:33:44: 24000000 INFO @ Fri, 10 Dec 2021 12:33:45: 21000000 INFO @ Fri, 10 Dec 2021 12:33:47: 27000000 INFO @ Fri, 10 Dec 2021 12:33:49: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 12:33:49: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 12:33:49: #1 total tags in treatment: 27280465 INFO @ Fri, 10 Dec 2021 12:33:49: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:33:49: #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 12:33:50: #1 tags after filtering in treatment: 27280465 INFO @ Fri, 10 Dec 2021 12:33:50: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:33:50: #1 finished! INFO @ Fri, 10 Dec 2021 12:33:50: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:33:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:33:50: 25000000 INFO @ Fri, 10 Dec 2021 12:33:50: 22000000 INFO @ Fri, 10 Dec 2021 12:33:51: #2 number of paired peaks: 684 WARNING @ Fri, 10 Dec 2021 12:33:51: Fewer paired peaks (684) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 684 pairs to build model! INFO @ Fri, 10 Dec 2021 12:33:51: start model_add_line... INFO @ Fri, 10 Dec 2021 12:33:52: start X-correlation... INFO @ Fri, 10 Dec 2021 12:33:52: end of X-cor INFO @ Fri, 10 Dec 2021 12:33:52: #2 finished! INFO @ Fri, 10 Dec 2021 12:33:52: #2 predicted fragment length is 210 bps INFO @ Fri, 10 Dec 2021 12:33:52: #2 alternative fragment length(s) may be 210 bps INFO @ Fri, 10 Dec 2021 12:33:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.10_model.r INFO @ Fri, 10 Dec 2021 12:33:52: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:33:52: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:33:55: 26000000 INFO @ Fri, 10 Dec 2021 12:33:55: 23000000 INFO @ Fri, 10 Dec 2021 12:34:00: 27000000 INFO @ Fri, 10 Dec 2021 12:34:00: 24000000 INFO @ Fri, 10 Dec 2021 12:34:02: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 12:34:02: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 12:34:02: #1 total tags in treatment: 27280465 INFO @ Fri, 10 Dec 2021 12:34:02: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:34:02: #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 12:34:03: #1 tags after filtering in treatment: 27280465 INFO @ Fri, 10 Dec 2021 12:34:03: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:34:03: #1 finished! INFO @ Fri, 10 Dec 2021 12:34:03: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:34:03: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:34:05: #2 number of paired peaks: 684 WARNING @ Fri, 10 Dec 2021 12:34:05: Fewer paired peaks (684) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 684 pairs to build model! INFO @ Fri, 10 Dec 2021 12:34:05: start model_add_line... INFO @ Fri, 10 Dec 2021 12:34:05: start X-correlation... INFO @ Fri, 10 Dec 2021 12:34:05: end of X-cor INFO @ Fri, 10 Dec 2021 12:34:05: #2 finished! INFO @ Fri, 10 Dec 2021 12:34:05: #2 predicted fragment length is 210 bps INFO @ Fri, 10 Dec 2021 12:34:05: #2 alternative fragment length(s) may be 210 bps INFO @ Fri, 10 Dec 2021 12:34:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.05_model.r INFO @ Fri, 10 Dec 2021 12:34:05: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:34:05: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:34:05: 25000000 INFO @ Fri, 10 Dec 2021 12:34:10: 26000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 12:34:15: 27000000 INFO @ Fri, 10 Dec 2021 12:34:17: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 12:34:17: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 12:34:17: #1 total tags in treatment: 27280465 INFO @ Fri, 10 Dec 2021 12:34:17: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:34:17: #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 12:34:18: #1 tags after filtering in treatment: 27280465 INFO @ Fri, 10 Dec 2021 12:34:18: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:34:18: #1 finished! INFO @ Fri, 10 Dec 2021 12:34:18: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:34:18: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:34:20: #2 number of paired peaks: 684 WARNING @ Fri, 10 Dec 2021 12:34:20: Fewer paired peaks (684) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 684 pairs to build model! INFO @ Fri, 10 Dec 2021 12:34:20: start model_add_line... INFO @ Fri, 10 Dec 2021 12:34:20: start X-correlation... INFO @ Fri, 10 Dec 2021 12:34:20: end of X-cor INFO @ Fri, 10 Dec 2021 12:34:20: #2 finished! INFO @ Fri, 10 Dec 2021 12:34:20: #2 predicted fragment length is 210 bps INFO @ Fri, 10 Dec 2021 12:34:20: #2 alternative fragment length(s) may be 210 bps INFO @ Fri, 10 Dec 2021 12:34:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.20_model.r INFO @ Fri, 10 Dec 2021 12:34:20: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:34:20: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:34:47: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:35:00: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:35:11: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.10_peaks.xls INFO @ Fri, 10 Dec 2021 12:35:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:35:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.10_summits.bed INFO @ Fri, 10 Dec 2021 12:35:11: Done! pass1 - making usageList (778 chroms): 2 millis pass2 - checking and writing primary data (4688 records, 4 fields): 30 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:35:14: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:35:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.05_peaks.xls INFO @ Fri, 10 Dec 2021 12:35:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:35:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.05_summits.bed INFO @ Fri, 10 Dec 2021 12:35:23: Done! pass1 - making usageList (899 chroms): 1 millis pass2 - checking and writing primary data (5923 records, 4 fields): 28 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 12:35:37: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.20_peaks.xls INFO @ Fri, 10 Dec 2021 12:35:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:35:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8574265/SRX8574265.20_summits.bed INFO @ Fri, 10 Dec 2021 12:35:37: Done! pass1 - making usageList (647 chroms): 1 millis pass2 - checking and writing primary data (3624 records, 4 fields): 20 millis CompletedMACS2peakCalling