Job ID = 6529199 SRX = SRX041386 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: 00:08:27 43119791 reads; of these: 43119791 (100.00%) were unpaired; of these: 807125 (1.87%) aligned 0 times 34733754 (80.55%) aligned exactly 1 time 7578912 (17.58%) aligned >1 times 98.13% overall alignment rate Time searching: 00:08:28 Overall time: 00:08:28 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 17937307 / 42312666 = 0.4239 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 01:29:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.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, 30 Jun 2020 01:29:57: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:29:57: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:30:02: 1000000 INFO @ Tue, 30 Jun 2020 01:30:08: 2000000 INFO @ Tue, 30 Jun 2020 01:30:13: 3000000 INFO @ Tue, 30 Jun 2020 01:30:18: 4000000 INFO @ Tue, 30 Jun 2020 01:30:24: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 01:30:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.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, 30 Jun 2020 01:30:27: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:30:27: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:30:29: 6000000 INFO @ Tue, 30 Jun 2020 01:30:33: 1000000 INFO @ Tue, 30 Jun 2020 01:30:35: 7000000 INFO @ Tue, 30 Jun 2020 01:30:38: 2000000 INFO @ Tue, 30 Jun 2020 01:30:41: 8000000 INFO @ Tue, 30 Jun 2020 01:30:44: 3000000 INFO @ Tue, 30 Jun 2020 01:30:47: 9000000 INFO @ Tue, 30 Jun 2020 01:30:50: 4000000 INFO @ Tue, 30 Jun 2020 01:30:52: 10000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 01:30:56: 5000000 INFO @ Tue, 30 Jun 2020 01:30:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.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, 30 Jun 2020 01:30:57: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:30:57: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:30:58: 11000000 INFO @ Tue, 30 Jun 2020 01:31:02: 6000000 INFO @ Tue, 30 Jun 2020 01:31:03: 1000000 INFO @ Tue, 30 Jun 2020 01:31:04: 12000000 INFO @ Tue, 30 Jun 2020 01:31:08: 7000000 INFO @ Tue, 30 Jun 2020 01:31:09: 2000000 INFO @ Tue, 30 Jun 2020 01:31:11: 13000000 INFO @ Tue, 30 Jun 2020 01:31:14: 8000000 INFO @ Tue, 30 Jun 2020 01:31:15: 3000000 INFO @ Tue, 30 Jun 2020 01:31:17: 14000000 INFO @ Tue, 30 Jun 2020 01:31:20: 9000000 INFO @ Tue, 30 Jun 2020 01:31:21: 4000000 INFO @ Tue, 30 Jun 2020 01:31:23: 15000000 INFO @ Tue, 30 Jun 2020 01:31:26: 10000000 INFO @ Tue, 30 Jun 2020 01:31:27: 5000000 INFO @ Tue, 30 Jun 2020 01:31:29: 16000000 INFO @ Tue, 30 Jun 2020 01:31:32: 11000000 INFO @ Tue, 30 Jun 2020 01:31:33: 6000000 INFO @ Tue, 30 Jun 2020 01:31:35: 17000000 INFO @ Tue, 30 Jun 2020 01:31:38: 12000000 INFO @ Tue, 30 Jun 2020 01:31:39: 7000000 INFO @ Tue, 30 Jun 2020 01:31:41: 18000000 INFO @ Tue, 30 Jun 2020 01:31:45: 13000000 INFO @ Tue, 30 Jun 2020 01:31:46: 8000000 INFO @ Tue, 30 Jun 2020 01:31:48: 19000000 INFO @ Tue, 30 Jun 2020 01:31:51: 14000000 INFO @ Tue, 30 Jun 2020 01:31:52: 9000000 INFO @ Tue, 30 Jun 2020 01:31:55: 20000000 INFO @ Tue, 30 Jun 2020 01:31:57: 15000000 INFO @ Tue, 30 Jun 2020 01:31:58: 10000000 INFO @ Tue, 30 Jun 2020 01:32:01: 21000000 INFO @ Tue, 30 Jun 2020 01:32:03: 16000000 INFO @ Tue, 30 Jun 2020 01:32:04: 11000000 INFO @ Tue, 30 Jun 2020 01:32:07: 22000000 INFO @ Tue, 30 Jun 2020 01:32:09: 17000000 INFO @ Tue, 30 Jun 2020 01:32:10: 12000000 INFO @ Tue, 30 Jun 2020 01:32:13: 23000000 INFO @ Tue, 30 Jun 2020 01:32:15: 18000000 INFO @ Tue, 30 Jun 2020 01:32:16: 13000000 INFO @ Tue, 30 Jun 2020 01:32:20: 24000000 INFO @ Tue, 30 Jun 2020 01:32:22: 19000000 INFO @ Tue, 30 Jun 2020 01:32:22: 14000000 INFO @ Tue, 30 Jun 2020 01:32:23: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:32:23: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:32:23: #1 total tags in treatment: 24375359 INFO @ Tue, 30 Jun 2020 01:32:23: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:32:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:32:24: #1 tags after filtering in treatment: 24375357 INFO @ Tue, 30 Jun 2020 01:32:24: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:32:24: #1 finished! INFO @ Tue, 30 Jun 2020 01:32:24: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:32:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:32:25: #2 number of paired peaks: 201 WARNING @ Tue, 30 Jun 2020 01:32:25: Fewer paired peaks (201) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 201 pairs to build model! INFO @ Tue, 30 Jun 2020 01:32:25: start model_add_line... INFO @ Tue, 30 Jun 2020 01:32:25: start X-correlation... INFO @ Tue, 30 Jun 2020 01:32:25: end of X-cor INFO @ Tue, 30 Jun 2020 01:32:25: #2 finished! INFO @ Tue, 30 Jun 2020 01:32:25: #2 predicted fragment length is 146 bps INFO @ Tue, 30 Jun 2020 01:32:25: #2 alternative fragment length(s) may be 4,146 bps INFO @ Tue, 30 Jun 2020 01:32:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.05_model.r INFO @ Tue, 30 Jun 2020 01:32:26: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:32:26: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:32:28: 15000000 INFO @ Tue, 30 Jun 2020 01:32:29: 20000000 INFO @ Tue, 30 Jun 2020 01:32:35: 16000000 INFO @ Tue, 30 Jun 2020 01:32:35: 21000000 INFO @ Tue, 30 Jun 2020 01:32:41: 17000000 INFO @ Tue, 30 Jun 2020 01:32:41: 22000000 INFO @ Tue, 30 Jun 2020 01:32:47: 18000000 INFO @ Tue, 30 Jun 2020 01:32:47: 23000000 INFO @ Tue, 30 Jun 2020 01:32:53: 19000000 INFO @ Tue, 30 Jun 2020 01:32:53: 24000000 INFO @ Tue, 30 Jun 2020 01:32:56: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:32:56: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:32:56: #1 total tags in treatment: 24375359 INFO @ Tue, 30 Jun 2020 01:32:56: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:32:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:32:57: #1 tags after filtering in treatment: 24375357 INFO @ Tue, 30 Jun 2020 01:32:57: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:32:57: #1 finished! INFO @ Tue, 30 Jun 2020 01:32:57: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:32:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:32:59: #2 number of paired peaks: 201 WARNING @ Tue, 30 Jun 2020 01:32:59: Fewer paired peaks (201) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 201 pairs to build model! INFO @ Tue, 30 Jun 2020 01:32:59: start model_add_line... INFO @ Tue, 30 Jun 2020 01:32:59: start X-correlation... INFO @ Tue, 30 Jun 2020 01:32:59: end of X-cor INFO @ Tue, 30 Jun 2020 01:32:59: #2 finished! INFO @ Tue, 30 Jun 2020 01:32:59: #2 predicted fragment length is 146 bps INFO @ Tue, 30 Jun 2020 01:32:59: #2 alternative fragment length(s) may be 4,146 bps INFO @ Tue, 30 Jun 2020 01:32:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.10_model.r INFO @ Tue, 30 Jun 2020 01:32:59: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:32:59: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:33:00: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:33:06: 21000000 INFO @ Tue, 30 Jun 2020 01:33:11: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:33:11: 22000000 INFO @ Tue, 30 Jun 2020 01:33:17: 23000000 INFO @ Tue, 30 Jun 2020 01:33:23: 24000000 INFO @ Tue, 30 Jun 2020 01:33:26: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:33:26: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:33:26: #1 total tags in treatment: 24375359 INFO @ Tue, 30 Jun 2020 01:33:26: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:33:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:33:27: #1 tags after filtering in treatment: 24375357 INFO @ Tue, 30 Jun 2020 01:33:27: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:33:27: #1 finished! INFO @ Tue, 30 Jun 2020 01:33:27: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:33:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:33:29: #2 number of paired peaks: 201 WARNING @ Tue, 30 Jun 2020 01:33:29: Fewer paired peaks (201) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 201 pairs to build model! INFO @ Tue, 30 Jun 2020 01:33:29: start model_add_line... INFO @ Tue, 30 Jun 2020 01:33:29: start X-correlation... INFO @ Tue, 30 Jun 2020 01:33:29: end of X-cor INFO @ Tue, 30 Jun 2020 01:33:29: #2 finished! INFO @ Tue, 30 Jun 2020 01:33:29: #2 predicted fragment length is 146 bps INFO @ Tue, 30 Jun 2020 01:33:29: #2 alternative fragment length(s) may be 4,146 bps INFO @ Tue, 30 Jun 2020 01:33:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.20_model.r INFO @ Tue, 30 Jun 2020 01:33:29: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:33:29: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:33:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.05_peaks.xls INFO @ Tue, 30 Jun 2020 01:33:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:33:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.05_summits.bed INFO @ Tue, 30 Jun 2020 01:33:36: Done! pass1 - making usageList (673 chroms): 2 millis pass2 - checking and writing primary data (4897 records, 4 fields): 62 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:33:45: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:34:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.10_peaks.xls INFO @ Tue, 30 Jun 2020 01:34:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:34:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.10_summits.bed INFO @ Tue, 30 Jun 2020 01:34:10: Done! pass1 - making usageList (561 chroms): 2 millis pass2 - checking and writing primary data (2387 records, 4 fields): 33 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 01:34:14: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:34:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.20_peaks.xls INFO @ Tue, 30 Jun 2020 01:34:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:34:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX041386/SRX041386.20_summits.bed INFO @ Tue, 30 Jun 2020 01:34:38: Done! pass1 - making usageList (469 chroms): 1 millis pass2 - checking and writing primary data (1335 records, 4 fields): 27 millis CompletedMACS2peakCalling