Job ID = 16439686 SRX = SRX13572055 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: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:11 19205968 reads; of these: 19205968 (100.00%) were unpaired; of these: 898233 (4.68%) aligned 0 times 15613764 (81.30%) aligned exactly 1 time 2693971 (14.03%) aligned >1 times 95.32% overall alignment rate Time searching: 00:04:11 Overall time: 00:04:11 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 8 files... [bam_rmdupse_core] 1695995 / 18307735 = 0.0926 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 16:03:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.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 16:03:44: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:03:44: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:03:49: 1000000 INFO @ Tue, 02 Aug 2022 16:03:54: 2000000 INFO @ Tue, 02 Aug 2022 16:04:00: 3000000 INFO @ Tue, 02 Aug 2022 16:04:05: 4000000 INFO @ Tue, 02 Aug 2022 16:04:11: 5000000 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 16:04:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.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 16:04:13: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:04:13: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:04:16: 6000000 INFO @ Tue, 02 Aug 2022 16:04:19: 1000000 INFO @ Tue, 02 Aug 2022 16:04:22: 7000000 INFO @ Tue, 02 Aug 2022 16:04:24: 2000000 INFO @ Tue, 02 Aug 2022 16:04:27: 8000000 INFO @ Tue, 02 Aug 2022 16:04:29: 3000000 INFO @ Tue, 02 Aug 2022 16:04:33: 9000000 INFO @ Tue, 02 Aug 2022 16:04:35: 4000000 INFO @ Tue, 02 Aug 2022 16:04:39: 10000000 INFO @ Tue, 02 Aug 2022 16:04:40: 5000000 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 16:04:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.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 16:04:43: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:04:43: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:04:45: 11000000 INFO @ Tue, 02 Aug 2022 16:04:46: 6000000 INFO @ Tue, 02 Aug 2022 16:04:49: 1000000 INFO @ Tue, 02 Aug 2022 16:04:51: 7000000 INFO @ Tue, 02 Aug 2022 16:04:51: 12000000 INFO @ Tue, 02 Aug 2022 16:04:54: 2000000 INFO @ Tue, 02 Aug 2022 16:04:56: 8000000 INFO @ Tue, 02 Aug 2022 16:04:57: 13000000 INFO @ Tue, 02 Aug 2022 16:05:00: 3000000 INFO @ Tue, 02 Aug 2022 16:05:01: 9000000 INFO @ Tue, 02 Aug 2022 16:05:03: 14000000 INFO @ Tue, 02 Aug 2022 16:05:06: 4000000 INFO @ Tue, 02 Aug 2022 16:05:07: 10000000 INFO @ Tue, 02 Aug 2022 16:05:09: 15000000 INFO @ Tue, 02 Aug 2022 16:05:12: 11000000 INFO @ Tue, 02 Aug 2022 16:05:12: 5000000 INFO @ Tue, 02 Aug 2022 16:05:15: 16000000 INFO @ Tue, 02 Aug 2022 16:05:17: 12000000 INFO @ Tue, 02 Aug 2022 16:05:18: 6000000 INFO @ Tue, 02 Aug 2022 16:05:19: #1 tag size is determined as 49 bps INFO @ Tue, 02 Aug 2022 16:05:19: #1 tag size = 49 INFO @ Tue, 02 Aug 2022 16:05:19: #1 total tags in treatment: 16611740 INFO @ Tue, 02 Aug 2022 16:05:19: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:05:19: #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 16:05:20: #1 tags after filtering in treatment: 16611724 INFO @ Tue, 02 Aug 2022 16:05:20: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:05:20: #1 finished! INFO @ Tue, 02 Aug 2022 16:05:20: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:05:20: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:05:21: #2 number of paired peaks: 150 WARNING @ Tue, 02 Aug 2022 16:05:21: Fewer paired peaks (150) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 150 pairs to build model! INFO @ Tue, 02 Aug 2022 16:05:21: start model_add_line... INFO @ Tue, 02 Aug 2022 16:05:21: start X-correlation... INFO @ Tue, 02 Aug 2022 16:05:21: end of X-cor INFO @ Tue, 02 Aug 2022 16:05:21: #2 finished! INFO @ Tue, 02 Aug 2022 16:05:21: #2 predicted fragment length is 131 bps INFO @ Tue, 02 Aug 2022 16:05:21: #2 alternative fragment length(s) may be 131 bps INFO @ Tue, 02 Aug 2022 16:05:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.05_model.r INFO @ Tue, 02 Aug 2022 16:05:21: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:05:21: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:05:22: 13000000 INFO @ Tue, 02 Aug 2022 16:05:23: 7000000 INFO @ Tue, 02 Aug 2022 16:05:28: 14000000 INFO @ Tue, 02 Aug 2022 16:05:29: 8000000 INFO @ Tue, 02 Aug 2022 16:05:33: 15000000 INFO @ Tue, 02 Aug 2022 16:05:35: 9000000 INFO @ Tue, 02 Aug 2022 16:05:38: 16000000 INFO @ Tue, 02 Aug 2022 16:05:41: 10000000 INFO @ Tue, 02 Aug 2022 16:05:42: #1 tag size is determined as 49 bps INFO @ Tue, 02 Aug 2022 16:05:42: #1 tag size = 49 INFO @ Tue, 02 Aug 2022 16:05:42: #1 total tags in treatment: 16611740 INFO @ Tue, 02 Aug 2022 16:05:42: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:05:42: #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 16:05:42: #1 tags after filtering in treatment: 16611724 INFO @ Tue, 02 Aug 2022 16:05:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:05:42: #1 finished! INFO @ Tue, 02 Aug 2022 16:05:42: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:05:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:05:43: #2 number of paired peaks: 150 WARNING @ Tue, 02 Aug 2022 16:05:43: Fewer paired peaks (150) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 150 pairs to build model! INFO @ Tue, 02 Aug 2022 16:05:43: start model_add_line... INFO @ Tue, 02 Aug 2022 16:05:43: start X-correlation... INFO @ Tue, 02 Aug 2022 16:05:43: end of X-cor INFO @ Tue, 02 Aug 2022 16:05:43: #2 finished! INFO @ Tue, 02 Aug 2022 16:05:43: #2 predicted fragment length is 131 bps INFO @ Tue, 02 Aug 2022 16:05:43: #2 alternative fragment length(s) may be 131 bps INFO @ Tue, 02 Aug 2022 16:05:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.10_model.r INFO @ Tue, 02 Aug 2022 16:05:43: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:05:43: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:05:47: 11000000 INFO @ Tue, 02 Aug 2022 16:05:51: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:05:53: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:05:59: 13000000 INFO @ Tue, 02 Aug 2022 16:06:05: 14000000 INFO @ Tue, 02 Aug 2022 16:06:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.05_peaks.xls INFO @ Tue, 02 Aug 2022 16:06:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:06:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.05_summits.bed INFO @ Tue, 02 Aug 2022 16:06:05: Done! pass1 - making usageList (409 chroms): 2 millis pass2 - checking and writing primary data (1592 records, 4 fields): 30 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:06:11: 15000000 INFO @ Tue, 02 Aug 2022 16:06:14: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:06:17: 16000000 INFO @ Tue, 02 Aug 2022 16:06:21: #1 tag size is determined as 49 bps INFO @ Tue, 02 Aug 2022 16:06:21: #1 tag size = 49 INFO @ Tue, 02 Aug 2022 16:06:21: #1 total tags in treatment: 16611740 INFO @ Tue, 02 Aug 2022 16:06:21: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:06:21: #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 16:06:21: #1 tags after filtering in treatment: 16611724 INFO @ Tue, 02 Aug 2022 16:06:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:06:21: #1 finished! INFO @ Tue, 02 Aug 2022 16:06:21: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:06:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:06:22: #2 number of paired peaks: 150 WARNING @ Tue, 02 Aug 2022 16:06:22: Fewer paired peaks (150) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 150 pairs to build model! INFO @ Tue, 02 Aug 2022 16:06:22: start model_add_line... INFO @ Tue, 02 Aug 2022 16:06:22: start X-correlation... INFO @ Tue, 02 Aug 2022 16:06:22: end of X-cor INFO @ Tue, 02 Aug 2022 16:06:22: #2 finished! INFO @ Tue, 02 Aug 2022 16:06:22: #2 predicted fragment length is 131 bps INFO @ Tue, 02 Aug 2022 16:06:22: #2 alternative fragment length(s) may be 131 bps INFO @ Tue, 02 Aug 2022 16:06:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.20_model.r INFO @ Tue, 02 Aug 2022 16:06:22: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:06:22: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:06:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.10_peaks.xls INFO @ Tue, 02 Aug 2022 16:06:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:06:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.10_summits.bed INFO @ Tue, 02 Aug 2022 16:06:29: Done! pass1 - making usageList (271 chroms): 1 millis pass2 - checking and writing primary data (881 records, 4 fields): 43 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 16:06:55: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:07:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.20_peaks.xls INFO @ Tue, 02 Aug 2022 16:07:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:07:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX13572055/SRX13572055.20_summits.bed INFO @ Tue, 02 Aug 2022 16:07:10: Done! pass1 - making usageList (108 chroms): 1 millis pass2 - checking and writing primary data (401 records, 4 fields): 25 millis CompletedMACS2peakCalling