Job ID = 12265191 SRX = SRX3426793 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7962646 spots for SRR6327144/SRR6327144.sra Written 7962646 spots for SRR6327144/SRR6327144.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265381 ("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: 00:10:34 7962646 reads; of these: 7962646 (100.00%) were paired; of these: 4924688 (61.85%) aligned concordantly 0 times 2202239 (27.66%) aligned concordantly exactly 1 time 835719 (10.50%) aligned concordantly >1 times ---- 4924688 pairs aligned concordantly 0 times; of these: 551400 (11.20%) aligned discordantly 1 time ---- 4373288 pairs aligned 0 times concordantly or discordantly; of these: 8746576 mates make up the pairs; of these: 5436887 (62.16%) aligned 0 times 2081642 (23.80%) aligned exactly 1 time 1228047 (14.04%) aligned >1 times 65.86% overall alignment rate Time searching: 00:10:34 Overall time: 00:10:34 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_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 239081 / 3560191 = 0.0672 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 06:26:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.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 06:26:53: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:26:53: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:26:59: 1000000 INFO @ Sat, 03 Apr 2021 06:27:05: 2000000 INFO @ Sat, 03 Apr 2021 06:27:10: 3000000 INFO @ Sat, 03 Apr 2021 06:27:15: 4000000 INFO @ Sat, 03 Apr 2021 06:27:21: 5000000 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 06:27:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.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 06:27:23: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:27:23: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:27:26: 6000000 INFO @ Sat, 03 Apr 2021 06:27:28: 1000000 INFO @ Sat, 03 Apr 2021 06:27:32: 7000000 INFO @ Sat, 03 Apr 2021 06:27:34: 2000000 INFO @ Sat, 03 Apr 2021 06:27:37: 8000000 INFO @ Sat, 03 Apr 2021 06:27:39: 3000000 INFO @ Sat, 03 Apr 2021 06:27:43: 9000000 INFO @ Sat, 03 Apr 2021 06:27:44: 4000000 INFO @ Sat, 03 Apr 2021 06:27:48: 10000000 INFO @ Sat, 03 Apr 2021 06:27:48: #1 tag size is determined as 40 bps INFO @ Sat, 03 Apr 2021 06:27:48: #1 tag size = 40 INFO @ Sat, 03 Apr 2021 06:27:48: #1 total tags in treatment: 2828670 INFO @ Sat, 03 Apr 2021 06:27:48: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:27:48: #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 06:27:48: #1 tags after filtering in treatment: 2555926 INFO @ Sat, 03 Apr 2021 06:27:48: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 03 Apr 2021 06:27:48: #1 finished! INFO @ Sat, 03 Apr 2021 06:27:48: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:27:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:27:48: #2 number of paired peaks: 1545 INFO @ Sat, 03 Apr 2021 06:27:48: start model_add_line... INFO @ Sat, 03 Apr 2021 06:27:48: start X-correlation... INFO @ Sat, 03 Apr 2021 06:27:48: end of X-cor INFO @ Sat, 03 Apr 2021 06:27:48: #2 finished! INFO @ Sat, 03 Apr 2021 06:27:48: #2 predicted fragment length is 96 bps INFO @ Sat, 03 Apr 2021 06:27:48: #2 alternative fragment length(s) may be 96 bps INFO @ Sat, 03 Apr 2021 06:27:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.05_model.r INFO @ Sat, 03 Apr 2021 06:27:48: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:27:48: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:27:50: 5000000 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 06:27:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.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 06:27:53: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:27:53: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:27:54: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:27:55: 6000000 INFO @ Sat, 03 Apr 2021 06:27:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:27:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:27:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.05_summits.bed INFO @ Sat, 03 Apr 2021 06:27:57: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (3831 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:27:59: 1000000 INFO @ Sat, 03 Apr 2021 06:28:01: 7000000 INFO @ Sat, 03 Apr 2021 06:28:04: 2000000 INFO @ Sat, 03 Apr 2021 06:28:07: 8000000 INFO @ Sat, 03 Apr 2021 06:28:09: 3000000 INFO @ Sat, 03 Apr 2021 06:28:14: 9000000 INFO @ Sat, 03 Apr 2021 06:28:14: 4000000 INFO @ Sat, 03 Apr 2021 06:28:19: 10000000 INFO @ Sat, 03 Apr 2021 06:28:19: #1 tag size is determined as 40 bps INFO @ Sat, 03 Apr 2021 06:28:19: #1 tag size = 40 INFO @ Sat, 03 Apr 2021 06:28:19: #1 total tags in treatment: 2828670 INFO @ Sat, 03 Apr 2021 06:28:19: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:28:19: #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 06:28:19: #1 tags after filtering in treatment: 2555926 INFO @ Sat, 03 Apr 2021 06:28:19: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 03 Apr 2021 06:28:19: #1 finished! INFO @ Sat, 03 Apr 2021 06:28:19: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:28:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:28:19: #2 number of paired peaks: 1545 INFO @ Sat, 03 Apr 2021 06:28:19: start model_add_line... INFO @ Sat, 03 Apr 2021 06:28:19: start X-correlation... INFO @ Sat, 03 Apr 2021 06:28:19: end of X-cor INFO @ Sat, 03 Apr 2021 06:28:19: #2 finished! INFO @ Sat, 03 Apr 2021 06:28:19: #2 predicted fragment length is 96 bps INFO @ Sat, 03 Apr 2021 06:28:19: #2 alternative fragment length(s) may be 96 bps INFO @ Sat, 03 Apr 2021 06:28:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.10_model.r INFO @ Sat, 03 Apr 2021 06:28:19: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:28:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:28:19: 5000000 INFO @ Sat, 03 Apr 2021 06:28:24: 6000000 INFO @ Sat, 03 Apr 2021 06:28:24: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:28:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:28:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:28:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.10_summits.bed INFO @ Sat, 03 Apr 2021 06:28:27: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (1544 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:28:29: 7000000 INFO @ Sat, 03 Apr 2021 06:28:34: 8000000 INFO @ Sat, 03 Apr 2021 06:28:39: 9000000 INFO @ Sat, 03 Apr 2021 06:28:43: 10000000 INFO @ Sat, 03 Apr 2021 06:28:43: #1 tag size is determined as 40 bps INFO @ Sat, 03 Apr 2021 06:28:43: #1 tag size = 40 INFO @ Sat, 03 Apr 2021 06:28:43: #1 total tags in treatment: 2828670 INFO @ Sat, 03 Apr 2021 06:28:43: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:28:43: #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 06:28:44: #1 tags after filtering in treatment: 2555926 INFO @ Sat, 03 Apr 2021 06:28:44: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 03 Apr 2021 06:28:44: #1 finished! INFO @ Sat, 03 Apr 2021 06:28:44: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:28:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:28:44: #2 number of paired peaks: 1545 INFO @ Sat, 03 Apr 2021 06:28:44: start model_add_line... INFO @ Sat, 03 Apr 2021 06:28:44: start X-correlation... INFO @ Sat, 03 Apr 2021 06:28:44: end of X-cor INFO @ Sat, 03 Apr 2021 06:28:44: #2 finished! INFO @ Sat, 03 Apr 2021 06:28:44: #2 predicted fragment length is 96 bps INFO @ Sat, 03 Apr 2021 06:28:44: #2 alternative fragment length(s) may be 96 bps INFO @ Sat, 03 Apr 2021 06:28:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.20_model.r INFO @ Sat, 03 Apr 2021 06:28:44: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:28:44: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:28:49: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:28:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:28:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:28:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3426793/SRX3426793.20_summits.bed INFO @ Sat, 03 Apr 2021 06:28:52: Done! pass1 - making usageList (10 chroms): 1 millis pass2 - checking and writing primary data (277 records, 4 fields): 6 millis CompletedMACS2peakCalling BigWig に変換しました。