Job ID = 14172252 SRX = SRX9281752 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5294689 spots for SRR12813487/SRR12813487.sra Written 5294689 spots for SRR12813487/SRR12813487.sra Read 5301295 spots for SRR12813488/SRR12813488.sra Written 5301295 spots for SRR12813488/SRR12813488.sra Read 5439828 spots for SRR12813489/SRR12813489.sra Written 5439828 spots for SRR12813489/SRR12813489.sra Read 4983309 spots for SRR12813490/SRR12813490.sra Written 4983309 spots for SRR12813490/SRR12813490.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172745 ("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: 00:07:55 21019121 reads; of these: 21019121 (100.00%) were paired; of these: 17858056 (84.96%) aligned concordantly 0 times 2848439 (13.55%) aligned concordantly exactly 1 time 312626 (1.49%) aligned concordantly >1 times ---- 17858056 pairs aligned concordantly 0 times; of these: 20572 (0.12%) aligned discordantly 1 time ---- 17837484 pairs aligned 0 times concordantly or discordantly; of these: 35674968 mates make up the pairs; of these: 35240270 (98.78%) aligned 0 times 230350 (0.65%) aligned exactly 1 time 204348 (0.57%) aligned >1 times 16.17% overall alignment rate Time searching: 00:07:55 Overall time: 00:07:55 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] 450252 / 3173628 = 0.1419 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 15:06:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.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, 11 Dec 2021 15:06:33: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:06:33: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:06:41: 1000000 INFO @ Sat, 11 Dec 2021 15:06:48: 2000000 INFO @ Sat, 11 Dec 2021 15:06:55: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 15:07:02: 4000000 INFO @ Sat, 11 Dec 2021 15:07:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.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, 11 Dec 2021 15:07:03: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:07:03: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:07:09: 5000000 INFO @ Sat, 11 Dec 2021 15:07:12: 1000000 INFO @ Sat, 11 Dec 2021 15:07:15: #1 tag size is determined as 39 bps INFO @ Sat, 11 Dec 2021 15:07:15: #1 tag size = 39 INFO @ Sat, 11 Dec 2021 15:07:15: #1 total tags in treatment: 2711063 INFO @ Sat, 11 Dec 2021 15:07:15: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:07:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:07:15: #1 tags after filtering in treatment: 1745294 INFO @ Sat, 11 Dec 2021 15:07:15: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 11 Dec 2021 15:07:15: #1 finished! INFO @ Sat, 11 Dec 2021 15:07:15: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:07:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:07:16: #2 number of paired peaks: 10541 INFO @ Sat, 11 Dec 2021 15:07:16: start model_add_line... INFO @ Sat, 11 Dec 2021 15:07:16: start X-correlation... INFO @ Sat, 11 Dec 2021 15:07:16: end of X-cor INFO @ Sat, 11 Dec 2021 15:07:16: #2 finished! INFO @ Sat, 11 Dec 2021 15:07:16: #2 predicted fragment length is 152 bps INFO @ Sat, 11 Dec 2021 15:07:16: #2 alternative fragment length(s) may be 152,299 bps INFO @ Sat, 11 Dec 2021 15:07:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.05_model.r INFO @ Sat, 11 Dec 2021 15:07:16: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:07:16: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:07:20: 2000000 INFO @ Sat, 11 Dec 2021 15:07:20: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:07:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:07:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:07:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.05_summits.bed INFO @ Sat, 11 Dec 2021 15:07:23: Done! pass1 - making usageList (14 chroms): 4 millis pass2 - checking and writing primary data (7793 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:07:28: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 15:07:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.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, 11 Dec 2021 15:07:33: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:07:33: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:07:36: 4000000 INFO @ Sat, 11 Dec 2021 15:07:42: 1000000 INFO @ Sat, 11 Dec 2021 15:07:44: 5000000 INFO @ Sat, 11 Dec 2021 15:07:50: 2000000 INFO @ Sat, 11 Dec 2021 15:07:51: #1 tag size is determined as 39 bps INFO @ Sat, 11 Dec 2021 15:07:51: #1 tag size = 39 INFO @ Sat, 11 Dec 2021 15:07:51: #1 total tags in treatment: 2711063 INFO @ Sat, 11 Dec 2021 15:07:51: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:07:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:07:52: #1 tags after filtering in treatment: 1745294 INFO @ Sat, 11 Dec 2021 15:07:52: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 11 Dec 2021 15:07:52: #1 finished! INFO @ Sat, 11 Dec 2021 15:07:52: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:07:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:07:52: #2 number of paired peaks: 10541 INFO @ Sat, 11 Dec 2021 15:07:52: start model_add_line... INFO @ Sat, 11 Dec 2021 15:07:52: start X-correlation... INFO @ Sat, 11 Dec 2021 15:07:52: end of X-cor INFO @ Sat, 11 Dec 2021 15:07:52: #2 finished! INFO @ Sat, 11 Dec 2021 15:07:52: #2 predicted fragment length is 152 bps INFO @ Sat, 11 Dec 2021 15:07:52: #2 alternative fragment length(s) may be 152,299 bps INFO @ Sat, 11 Dec 2021 15:07:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.10_model.r INFO @ Sat, 11 Dec 2021 15:07:52: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:07:52: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:07:57: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:07:58: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:08:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:08:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:08:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.10_summits.bed INFO @ Sat, 11 Dec 2021 15:08:00: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (6110 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:08:06: 4000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:08:14: 5000000 INFO @ Sat, 11 Dec 2021 15:08:22: #1 tag size is determined as 39 bps INFO @ Sat, 11 Dec 2021 15:08:22: #1 tag size = 39 INFO @ Sat, 11 Dec 2021 15:08:22: #1 total tags in treatment: 2711063 INFO @ Sat, 11 Dec 2021 15:08:22: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:08:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:08:22: #1 tags after filtering in treatment: 1745294 INFO @ Sat, 11 Dec 2021 15:08:22: #1 Redundant rate of treatment: 0.36 INFO @ Sat, 11 Dec 2021 15:08:22: #1 finished! INFO @ Sat, 11 Dec 2021 15:08:22: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:08:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:08:22: #2 number of paired peaks: 10541 INFO @ Sat, 11 Dec 2021 15:08:22: start model_add_line... INFO @ Sat, 11 Dec 2021 15:08:22: start X-correlation... INFO @ Sat, 11 Dec 2021 15:08:22: end of X-cor INFO @ Sat, 11 Dec 2021 15:08:22: #2 finished! INFO @ Sat, 11 Dec 2021 15:08:22: #2 predicted fragment length is 152 bps INFO @ Sat, 11 Dec 2021 15:08:22: #2 alternative fragment length(s) may be 152,299 bps INFO @ Sat, 11 Dec 2021 15:08:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.20_model.r INFO @ Sat, 11 Dec 2021 15:08:22: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:08:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:08:27: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:08:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:08:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:08:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9281752/SRX9281752.20_summits.bed INFO @ Sat, 11 Dec 2021 15:08:30: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (2948 records, 4 fields): 11 millis CompletedMACS2peakCalling