Job ID = 12264853 SRX = SRX3032252 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 12675106 spots for SRR5863942/SRR5863942.sra Written 12675106 spots for SRR5863942/SRR5863942.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265007 ("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: 00:02:00 12675106 reads; of these: 12675106 (100.00%) were unpaired; of these: 4875009 (38.46%) aligned 0 times 4924084 (38.85%) aligned exactly 1 time 2876013 (22.69%) aligned >1 times 61.54% overall alignment rate Time searching: 00:02:00 Overall time: 00:02:00 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_rmdupse_core] 3440507 / 7800097 = 0.4411 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 05:58:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.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 @ Sat, 03 Apr 2021 05:58:00: #1 read tag files... INFO @ Sat, 03 Apr 2021 05:58:00: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 05:58:06: 1000000 INFO @ Sat, 03 Apr 2021 05:58:13: 2000000 INFO @ Sat, 03 Apr 2021 05:58:19: 3000000 INFO @ Sat, 03 Apr 2021 05:58:25: 4000000 INFO @ Sat, 03 Apr 2021 05:58:27: #1 tag size is determined as 20 bps INFO @ Sat, 03 Apr 2021 05:58:27: #1 tag size = 20 INFO @ Sat, 03 Apr 2021 05:58:27: #1 total tags in treatment: 4359590 INFO @ Sat, 03 Apr 2021 05:58:27: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 05:58:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 05:58:27: #1 tags after filtering in treatment: 4359590 INFO @ Sat, 03 Apr 2021 05:58:27: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 05:58:27: #1 finished! INFO @ Sat, 03 Apr 2021 05:58:27: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 05:58:27: #2 looking for paired plus/minus strand peaks... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 05:58:28: #2 number of paired peaks: 2156 INFO @ Sat, 03 Apr 2021 05:58:28: start model_add_line... INFO @ Sat, 03 Apr 2021 05:58:28: start X-correlation... INFO @ Sat, 03 Apr 2021 05:58:28: end of X-cor INFO @ Sat, 03 Apr 2021 05:58:28: #2 finished! INFO @ Sat, 03 Apr 2021 05:58:28: #2 predicted fragment length is 64 bps INFO @ Sat, 03 Apr 2021 05:58:28: #2 alternative fragment length(s) may be 64 bps INFO @ Sat, 03 Apr 2021 05:58:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.05_model.r INFO @ Sat, 03 Apr 2021 05:58:28: #3 Call peaks... INFO @ Sat, 03 Apr 2021 05:58:28: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 05:58:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.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 @ Sat, 03 Apr 2021 05:58:30: #1 read tag files... INFO @ Sat, 03 Apr 2021 05:58:30: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 05:58:37: 1000000 INFO @ Sat, 03 Apr 2021 05:58:41: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 05:58:43: 2000000 INFO @ Sat, 03 Apr 2021 05:58:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.05_peaks.xls INFO @ Sat, 03 Apr 2021 05:58:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 05:58:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.05_summits.bed INFO @ Sat, 03 Apr 2021 05:58:49: Done! pass1 - making usageList (15 chroms): 5 millis pass2 - checking and writing primary data (9988 records, 4 fields): 21 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 05:58:50: 3000000 INFO @ Sat, 03 Apr 2021 05:58:56: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 05:58:58: #1 tag size is determined as 20 bps INFO @ Sat, 03 Apr 2021 05:58:58: #1 tag size = 20 INFO @ Sat, 03 Apr 2021 05:58:58: #1 total tags in treatment: 4359590 INFO @ Sat, 03 Apr 2021 05:58:58: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 05:58:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 05:58:58: #1 tags after filtering in treatment: 4359590 INFO @ Sat, 03 Apr 2021 05:58:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 05:58:58: #1 finished! INFO @ Sat, 03 Apr 2021 05:58:58: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 05:58:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 05:58:59: #2 number of paired peaks: 2156 INFO @ Sat, 03 Apr 2021 05:58:59: start model_add_line... INFO @ Sat, 03 Apr 2021 05:58:59: start X-correlation... INFO @ Sat, 03 Apr 2021 05:58:59: end of X-cor INFO @ Sat, 03 Apr 2021 05:58:59: #2 finished! INFO @ Sat, 03 Apr 2021 05:58:59: #2 predicted fragment length is 64 bps INFO @ Sat, 03 Apr 2021 05:58:59: #2 alternative fragment length(s) may be 64 bps INFO @ Sat, 03 Apr 2021 05:58:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.10_model.r INFO @ Sat, 03 Apr 2021 05:58:59: #3 Call peaks... INFO @ Sat, 03 Apr 2021 05:58:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 05:59:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.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 @ Sat, 03 Apr 2021 05:59:00: #1 read tag files... INFO @ Sat, 03 Apr 2021 05:59:00: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 05:59:07: 1000000 INFO @ Sat, 03 Apr 2021 05:59:12: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 05:59:14: 2000000 INFO @ Sat, 03 Apr 2021 05:59:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.10_peaks.xls INFO @ Sat, 03 Apr 2021 05:59:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 05:59:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.10_summits.bed INFO @ Sat, 03 Apr 2021 05:59:19: Done! pass1 - making usageList (13 chroms): 2 millis pass2 - checking and writing primary data (3956 records, 4 fields): 33 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 05:59:21: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 05:59:27: 4000000 INFO @ Sat, 03 Apr 2021 05:59:30: #1 tag size is determined as 20 bps INFO @ Sat, 03 Apr 2021 05:59:30: #1 tag size = 20 INFO @ Sat, 03 Apr 2021 05:59:30: #1 total tags in treatment: 4359590 INFO @ Sat, 03 Apr 2021 05:59:30: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 05:59:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 05:59:30: #1 tags after filtering in treatment: 4359590 INFO @ Sat, 03 Apr 2021 05:59:30: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 05:59:30: #1 finished! INFO @ Sat, 03 Apr 2021 05:59:30: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 05:59:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 05:59:31: #2 number of paired peaks: 2156 INFO @ Sat, 03 Apr 2021 05:59:31: start model_add_line... INFO @ Sat, 03 Apr 2021 05:59:31: start X-correlation... INFO @ Sat, 03 Apr 2021 05:59:31: end of X-cor INFO @ Sat, 03 Apr 2021 05:59:31: #2 finished! INFO @ Sat, 03 Apr 2021 05:59:31: #2 predicted fragment length is 64 bps INFO @ Sat, 03 Apr 2021 05:59:31: #2 alternative fragment length(s) may be 64 bps INFO @ Sat, 03 Apr 2021 05:59:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.20_model.r INFO @ Sat, 03 Apr 2021 05:59:31: #3 Call peaks... INFO @ Sat, 03 Apr 2021 05:59:31: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 05:59:44: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 05:59:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.20_peaks.xls INFO @ Sat, 03 Apr 2021 05:59:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 05:59:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3032252/SRX3032252.20_summits.bed INFO @ Sat, 03 Apr 2021 05:59:51: Done! pass1 - making usageList (8 chroms): 1 millis pass2 - checking and writing primary data (477 records, 4 fields): 2 millis CompletedMACS2peakCalling