Job ID = 16439276 SRX = SRX15206455 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: 00:02:48 7587875 reads; of these: 7587875 (100.00%) were unpaired; of these: 388150 (5.12%) aligned 0 times 5873647 (77.41%) aligned exactly 1 time 1326078 (17.48%) aligned >1 times 94.88% overall alignment rate Time searching: 00:02:48 Overall time: 00:02:48 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_rmdupse_core] 713319 / 7199725 = 0.0991 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 14:54:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.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 14:54:09: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:54:09: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:54:21: 1000000 INFO @ Tue, 02 Aug 2022 14:54:33: 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 14:54:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.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 14:54:37: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:54:37: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:54:47: 3000000 INFO @ Tue, 02 Aug 2022 14:54:52: 1000000 INFO @ Tue, 02 Aug 2022 14:55:01: 4000000 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 14:55:06: 2000000 INFO @ Tue, 02 Aug 2022 14:55:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.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 14:55:07: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:55:07: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:55:16: 5000000 INFO @ Tue, 02 Aug 2022 14:55:20: 3000000 INFO @ Tue, 02 Aug 2022 14:55:21: 1000000 INFO @ Tue, 02 Aug 2022 14:55:30: 6000000 INFO @ Tue, 02 Aug 2022 14:55:34: 4000000 INFO @ Tue, 02 Aug 2022 14:55:36: 2000000 INFO @ Tue, 02 Aug 2022 14:55:37: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 14:55:37: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 14:55:37: #1 total tags in treatment: 6486406 INFO @ Tue, 02 Aug 2022 14:55:37: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:55:37: #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 14:55:38: #1 tags after filtering in treatment: 6486214 INFO @ Tue, 02 Aug 2022 14:55:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:55:38: #1 finished! INFO @ Tue, 02 Aug 2022 14:55:38: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:55:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:55:39: #2 number of paired peaks: 819 WARNING @ Tue, 02 Aug 2022 14:55:39: Fewer paired peaks (819) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 819 pairs to build model! INFO @ Tue, 02 Aug 2022 14:55:39: start model_add_line... INFO @ Tue, 02 Aug 2022 14:55:39: start X-correlation... INFO @ Tue, 02 Aug 2022 14:55:39: end of X-cor INFO @ Tue, 02 Aug 2022 14:55:39: #2 finished! INFO @ Tue, 02 Aug 2022 14:55:39: #2 predicted fragment length is 172 bps INFO @ Tue, 02 Aug 2022 14:55:39: #2 alternative fragment length(s) may be 4,172 bps INFO @ Tue, 02 Aug 2022 14:55:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.05_model.r INFO @ Tue, 02 Aug 2022 14:55:39: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:55:39: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:55:47: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 14:55:50: 3000000 INFO @ Tue, 02 Aug 2022 14:55:59: 6000000 INFO @ Tue, 02 Aug 2022 14:56:01: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:56:03: 4000000 INFO @ Tue, 02 Aug 2022 14:56:05: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 14:56:05: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 14:56:05: #1 total tags in treatment: 6486406 INFO @ Tue, 02 Aug 2022 14:56:05: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:56:05: #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 14:56:06: #1 tags after filtering in treatment: 6486214 INFO @ Tue, 02 Aug 2022 14:56:06: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:56:06: #1 finished! INFO @ Tue, 02 Aug 2022 14:56:06: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:56:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:56:06: #2 number of paired peaks: 819 WARNING @ Tue, 02 Aug 2022 14:56:06: Fewer paired peaks (819) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 819 pairs to build model! INFO @ Tue, 02 Aug 2022 14:56:06: start model_add_line... INFO @ Tue, 02 Aug 2022 14:56:06: start X-correlation... INFO @ Tue, 02 Aug 2022 14:56:06: end of X-cor INFO @ Tue, 02 Aug 2022 14:56:06: #2 finished! INFO @ Tue, 02 Aug 2022 14:56:06: #2 predicted fragment length is 172 bps INFO @ Tue, 02 Aug 2022 14:56:06: #2 alternative fragment length(s) may be 4,172 bps INFO @ Tue, 02 Aug 2022 14:56:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.10_model.r INFO @ Tue, 02 Aug 2022 14:56:06: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:56:06: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:56:11: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.05_peaks.xls INFO @ Tue, 02 Aug 2022 14:56:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:56:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.05_summits.bed INFO @ Tue, 02 Aug 2022 14:56:11: Done! pass1 - making usageList (373 chroms): 3 millis pass2 - checking and writing primary data (1984 records, 4 fields): 45 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 14:56:16: 5000000 INFO @ Tue, 02 Aug 2022 14:56:28: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:56:29: 6000000 INFO @ Tue, 02 Aug 2022 14:56:35: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 14:56:35: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 14:56:35: #1 total tags in treatment: 6486406 INFO @ Tue, 02 Aug 2022 14:56:35: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:56:35: #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 14:56:35: #1 tags after filtering in treatment: 6486214 INFO @ Tue, 02 Aug 2022 14:56:35: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:56:35: #1 finished! INFO @ Tue, 02 Aug 2022 14:56:35: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:56:35: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:56:36: #2 number of paired peaks: 819 WARNING @ Tue, 02 Aug 2022 14:56:36: Fewer paired peaks (819) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 819 pairs to build model! INFO @ Tue, 02 Aug 2022 14:56:36: start model_add_line... INFO @ Tue, 02 Aug 2022 14:56:36: start X-correlation... INFO @ Tue, 02 Aug 2022 14:56:36: end of X-cor INFO @ Tue, 02 Aug 2022 14:56:36: #2 finished! INFO @ Tue, 02 Aug 2022 14:56:36: #2 predicted fragment length is 172 bps INFO @ Tue, 02 Aug 2022 14:56:36: #2 alternative fragment length(s) may be 4,172 bps INFO @ Tue, 02 Aug 2022 14:56:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.20_model.r INFO @ Tue, 02 Aug 2022 14:56:36: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:56:36: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:56:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.10_peaks.xls INFO @ Tue, 02 Aug 2022 14:56:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:56:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.10_summits.bed INFO @ Tue, 02 Aug 2022 14:56:38: Done! pass1 - making usageList (193 chroms): 3 millis pass2 - checking and writing primary data (669 records, 4 fields): 34 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 14:56:58: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:57:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.20_peaks.xls INFO @ Tue, 02 Aug 2022 14:57:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:57:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206455/SRX15206455.20_summits.bed INFO @ Tue, 02 Aug 2022 14:57:08: Done! pass1 - making usageList (99 chroms): 3 millis pass2 - checking and writing primary data (203 records, 4 fields): 32 millis CompletedMACS2peakCalling