Job ID = 14167261 SRX = SRX8076964 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 17451037 spots for SRR11504836/SRR11504836.sra Written 17451037 spots for SRR11504836/SRR11504836.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167895 ("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: 00:12:01 17451037 reads; of these: 17451037 (100.00%) were paired; of these: 7579327 (43.43%) aligned concordantly 0 times 8903341 (51.02%) aligned concordantly exactly 1 time 968369 (5.55%) aligned concordantly >1 times ---- 7579327 pairs aligned concordantly 0 times; of these: 1163354 (15.35%) aligned discordantly 1 time ---- 6415973 pairs aligned 0 times concordantly or discordantly; of these: 12831946 mates make up the pairs; of these: 11891521 (92.67%) aligned 0 times 677413 (5.28%) aligned exactly 1 time 263012 (2.05%) aligned >1 times 65.93% overall alignment rate Time searching: 00:12:01 Overall time: 00:12:01 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_sort_core] merging from 12 files... [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] 2053808 / 11030584 = 0.1862 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 @ Fri, 10 Dec 2021 11:39:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.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 @ Fri, 10 Dec 2021 11:39:46: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:39:46: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:39:50: 1000000 INFO @ Fri, 10 Dec 2021 11:39:55: 2000000 INFO @ Fri, 10 Dec 2021 11:39:59: 3000000 INFO @ Fri, 10 Dec 2021 11:40:04: 4000000 INFO @ Fri, 10 Dec 2021 11:40:09: 5000000 INFO @ Fri, 10 Dec 2021 11:40:13: 6000000 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 @ Fri, 10 Dec 2021 11:40:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.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 @ Fri, 10 Dec 2021 11:40:16: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:40:16: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:40:18: 7000000 INFO @ Fri, 10 Dec 2021 11:40:23: 8000000 INFO @ Fri, 10 Dec 2021 11:40:24: 1000000 INFO @ Fri, 10 Dec 2021 11:40:29: 9000000 INFO @ Fri, 10 Dec 2021 11:40:32: 2000000 INFO @ Fri, 10 Dec 2021 11:40:34: 10000000 INFO @ Fri, 10 Dec 2021 11:40:39: 11000000 INFO @ Fri, 10 Dec 2021 11:40:41: 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 @ Fri, 10 Dec 2021 11:40:45: 12000000 INFO @ Fri, 10 Dec 2021 11:40:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.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 @ Fri, 10 Dec 2021 11:40:46: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:40:46: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:40:49: 4000000 INFO @ Fri, 10 Dec 2021 11:40:50: 13000000 INFO @ Fri, 10 Dec 2021 11:40:52: 1000000 INFO @ Fri, 10 Dec 2021 11:40:56: 14000000 INFO @ Fri, 10 Dec 2021 11:40:56: 5000000 INFO @ Fri, 10 Dec 2021 11:40:59: 2000000 INFO @ Fri, 10 Dec 2021 11:41:01: 15000000 INFO @ Fri, 10 Dec 2021 11:41:03: 6000000 INFO @ Fri, 10 Dec 2021 11:41:06: 3000000 INFO @ Fri, 10 Dec 2021 11:41:07: 16000000 INFO @ Fri, 10 Dec 2021 11:41:10: 7000000 INFO @ Fri, 10 Dec 2021 11:41:12: 17000000 INFO @ Fri, 10 Dec 2021 11:41:13: 4000000 INFO @ Fri, 10 Dec 2021 11:41:17: 8000000 INFO @ Fri, 10 Dec 2021 11:41:18: 18000000 INFO @ Fri, 10 Dec 2021 11:41:20: 5000000 INFO @ Fri, 10 Dec 2021 11:41:22: #1 tag size is determined as 43 bps INFO @ Fri, 10 Dec 2021 11:41:22: #1 tag size = 43 INFO @ Fri, 10 Dec 2021 11:41:22: #1 total tags in treatment: 7970963 INFO @ Fri, 10 Dec 2021 11:41:22: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:41:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 11:41:23: #1 tags after filtering in treatment: 7398430 INFO @ Fri, 10 Dec 2021 11:41:23: #1 Redundant rate of treatment: 0.07 INFO @ Fri, 10 Dec 2021 11:41:23: #1 finished! INFO @ Fri, 10 Dec 2021 11:41:23: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:41:23: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:41:24: #2 number of paired peaks: 7938 INFO @ Fri, 10 Dec 2021 11:41:24: start model_add_line... INFO @ Fri, 10 Dec 2021 11:41:24: start X-correlation... INFO @ Fri, 10 Dec 2021 11:41:24: end of X-cor INFO @ Fri, 10 Dec 2021 11:41:24: #2 finished! INFO @ Fri, 10 Dec 2021 11:41:24: #2 predicted fragment length is 246 bps INFO @ Fri, 10 Dec 2021 11:41:24: #2 alternative fragment length(s) may be 4,246 bps INFO @ Fri, 10 Dec 2021 11:41:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.05_model.r INFO @ Fri, 10 Dec 2021 11:41:24: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:41:24: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 11:41:24: 9000000 INFO @ Fri, 10 Dec 2021 11:41:27: 6000000 INFO @ Fri, 10 Dec 2021 11:41:30: 10000000 INFO @ Fri, 10 Dec 2021 11:41:34: 7000000 INFO @ Fri, 10 Dec 2021 11:41:37: 11000000 INFO @ Fri, 10 Dec 2021 11:41:40: 8000000 INFO @ Fri, 10 Dec 2021 11:41:43: 12000000 INFO @ Fri, 10 Dec 2021 11:41:45: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:41:47: 9000000 INFO @ Fri, 10 Dec 2021 11:41:50: 13000000 INFO @ Fri, 10 Dec 2021 11:41:53: 10000000 INFO @ Fri, 10 Dec 2021 11:41:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.05_peaks.xls INFO @ Fri, 10 Dec 2021 11:41:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:41:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.05_summits.bed INFO @ Fri, 10 Dec 2021 11:41:54: Done! pass1 - making usageList (10 chroms): 1 millis pass2 - checking and writing primary data (1205 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 11:41:57: 14000000 INFO @ Fri, 10 Dec 2021 11:42:00: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 11:42:03: 15000000 INFO @ Fri, 10 Dec 2021 11:42:06: 12000000 INFO @ Fri, 10 Dec 2021 11:42:10: 16000000 INFO @ Fri, 10 Dec 2021 11:42:12: 13000000 INFO @ Fri, 10 Dec 2021 11:42:16: 17000000 INFO @ Fri, 10 Dec 2021 11:42:19: 14000000 INFO @ Fri, 10 Dec 2021 11:42:23: 18000000 INFO @ Fri, 10 Dec 2021 11:42:25: 15000000 INFO @ Fri, 10 Dec 2021 11:42:29: #1 tag size is determined as 43 bps INFO @ Fri, 10 Dec 2021 11:42:29: #1 tag size = 43 INFO @ Fri, 10 Dec 2021 11:42:29: #1 total tags in treatment: 7970963 INFO @ Fri, 10 Dec 2021 11:42:29: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:42:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 11:42:29: #1 tags after filtering in treatment: 7398430 INFO @ Fri, 10 Dec 2021 11:42:29: #1 Redundant rate of treatment: 0.07 INFO @ Fri, 10 Dec 2021 11:42:29: #1 finished! INFO @ Fri, 10 Dec 2021 11:42:29: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:42:29: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 11:42:30: #2 number of paired peaks: 7938 INFO @ Fri, 10 Dec 2021 11:42:30: start model_add_line... INFO @ Fri, 10 Dec 2021 11:42:30: start X-correlation... INFO @ Fri, 10 Dec 2021 11:42:30: end of X-cor INFO @ Fri, 10 Dec 2021 11:42:30: #2 finished! INFO @ Fri, 10 Dec 2021 11:42:30: #2 predicted fragment length is 246 bps INFO @ Fri, 10 Dec 2021 11:42:30: #2 alternative fragment length(s) may be 4,246 bps INFO @ Fri, 10 Dec 2021 11:42:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.10_model.r INFO @ Fri, 10 Dec 2021 11:42:30: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:42:30: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 11:42:32: 16000000 INFO @ Fri, 10 Dec 2021 11:42:38: 17000000 INFO @ Fri, 10 Dec 2021 11:42:44: 18000000 INFO @ Fri, 10 Dec 2021 11:42:49: #1 tag size is determined as 43 bps INFO @ Fri, 10 Dec 2021 11:42:49: #1 tag size = 43 INFO @ Fri, 10 Dec 2021 11:42:49: #1 total tags in treatment: 7970963 INFO @ Fri, 10 Dec 2021 11:42:49: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:42:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 11:42:50: #1 tags after filtering in treatment: 7398430 INFO @ Fri, 10 Dec 2021 11:42:50: #1 Redundant rate of treatment: 0.07 INFO @ Fri, 10 Dec 2021 11:42:50: #1 finished! INFO @ Fri, 10 Dec 2021 11:42:50: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:42:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:42:51: #2 number of paired peaks: 7938 INFO @ Fri, 10 Dec 2021 11:42:51: start model_add_line... INFO @ Fri, 10 Dec 2021 11:42:51: start X-correlation... INFO @ Fri, 10 Dec 2021 11:42:51: end of X-cor INFO @ Fri, 10 Dec 2021 11:42:51: #2 finished! INFO @ Fri, 10 Dec 2021 11:42:51: #2 predicted fragment length is 246 bps INFO @ Fri, 10 Dec 2021 11:42:51: #2 alternative fragment length(s) may be 4,246 bps INFO @ Fri, 10 Dec 2021 11:42:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.20_model.r INFO @ Fri, 10 Dec 2021 11:42:51: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:42:51: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 11:42:53: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:43:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.10_peaks.xls INFO @ Fri, 10 Dec 2021 11:43:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:43:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.10_summits.bed INFO @ Fri, 10 Dec 2021 11:43:01: Done! pass1 - making usageList (10 chroms): 1 millis pass2 - checking and writing primary data (504 records, 4 fields): 1 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 11:43:13: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:43:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.20_peaks.xls INFO @ Fri, 10 Dec 2021 11:43:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:43:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8076964/SRX8076964.20_summits.bed INFO @ Fri, 10 Dec 2021 11:43:22: Done! pass1 - making usageList (8 chroms): 1 millis pass2 - checking and writing primary data (146 records, 4 fields): 1 millis CompletedMACS2peakCalling