Job ID = 14170586 SRX = SRX8497044 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 10536758 spots for SRR11952643/SRR11952643.sra Written 10536758 spots for SRR11952643/SRR11952643.sra fastq に変換しました。 bowtie でマッピング中... Your job 14171090 ("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: 00:35:43 10536758 reads; of these: 10536758 (100.00%) were paired; of these: 1296792 (12.31%) aligned concordantly 0 times 5238031 (49.71%) aligned concordantly exactly 1 time 4001935 (37.98%) aligned concordantly >1 times ---- 1296792 pairs aligned concordantly 0 times; of these: 349646 (26.96%) aligned discordantly 1 time ---- 947146 pairs aligned 0 times concordantly or discordantly; of these: 1894292 mates make up the pairs; of these: 1136192 (59.98%) aligned 0 times 187196 (9.88%) aligned exactly 1 time 570904 (30.14%) aligned >1 times 94.61% overall alignment rate Time searching: 00:35:43 Overall time: 00:35:43 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] 366166 / 9561188 = 0.0383 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 08:03:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.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 08:03:28: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:03:28: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:03:34: 1000000 INFO @ Sat, 11 Dec 2021 08:03:41: 2000000 INFO @ Sat, 11 Dec 2021 08:03:47: 3000000 INFO @ Sat, 11 Dec 2021 08:03:53: 4000000 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 08:03:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.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 08:03:58: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:03:58: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:03:59: 5000000 INFO @ Sat, 11 Dec 2021 08:04:06: 1000000 INFO @ Sat, 11 Dec 2021 08:04:07: 6000000 INFO @ Sat, 11 Dec 2021 08:04:14: 7000000 INFO @ Sat, 11 Dec 2021 08:04:15: 2000000 INFO @ Sat, 11 Dec 2021 08:04:22: 8000000 INFO @ Sat, 11 Dec 2021 08:04:23: 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 08:04:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.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 08:04:28: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:04:28: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:04:29: 9000000 INFO @ Sat, 11 Dec 2021 08:04:31: 4000000 INFO @ Sat, 11 Dec 2021 08:04:36: 1000000 INFO @ Sat, 11 Dec 2021 08:04:37: 10000000 INFO @ Sat, 11 Dec 2021 08:04:39: 5000000 INFO @ Sat, 11 Dec 2021 08:04:43: 2000000 INFO @ Sat, 11 Dec 2021 08:04:45: 11000000 INFO @ Sat, 11 Dec 2021 08:04:47: 6000000 INFO @ Sat, 11 Dec 2021 08:04:51: 3000000 INFO @ Sat, 11 Dec 2021 08:04:52: 12000000 INFO @ Sat, 11 Dec 2021 08:04:55: 7000000 INFO @ Sat, 11 Dec 2021 08:04:58: 4000000 INFO @ Sat, 11 Dec 2021 08:05:00: 13000000 INFO @ Sat, 11 Dec 2021 08:05:04: 8000000 INFO @ Sat, 11 Dec 2021 08:05:06: 5000000 INFO @ Sat, 11 Dec 2021 08:05:07: 14000000 INFO @ Sat, 11 Dec 2021 08:05:12: 9000000 INFO @ Sat, 11 Dec 2021 08:05:13: 6000000 INFO @ Sat, 11 Dec 2021 08:05:15: 15000000 INFO @ Sat, 11 Dec 2021 08:05:20: 10000000 INFO @ Sat, 11 Dec 2021 08:05:21: 7000000 INFO @ Sat, 11 Dec 2021 08:05:23: 16000000 INFO @ Sat, 11 Dec 2021 08:05:28: 8000000 INFO @ Sat, 11 Dec 2021 08:05:29: 11000000 INFO @ Sat, 11 Dec 2021 08:05:31: 17000000 INFO @ Sat, 11 Dec 2021 08:05:36: 9000000 INFO @ Sat, 11 Dec 2021 08:05:37: 12000000 INFO @ Sat, 11 Dec 2021 08:05:38: 18000000 INFO @ Sat, 11 Dec 2021 08:05:43: 10000000 INFO @ Sat, 11 Dec 2021 08:05:45: 13000000 INFO @ Sat, 11 Dec 2021 08:05:46: 19000000 INFO @ Sat, 11 Dec 2021 08:05:47: #1 tag size is determined as 101 bps INFO @ Sat, 11 Dec 2021 08:05:47: #1 tag size = 101 INFO @ Sat, 11 Dec 2021 08:05:47: #1 total tags in treatment: 8888407 INFO @ Sat, 11 Dec 2021 08:05:47: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:05:47: #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 08:05:48: #1 tags after filtering in treatment: 8448104 INFO @ Sat, 11 Dec 2021 08:05:48: #1 Redundant rate of treatment: 0.05 INFO @ Sat, 11 Dec 2021 08:05:48: #1 finished! INFO @ Sat, 11 Dec 2021 08:05:48: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:05:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:05:48: #2 number of paired peaks: 1020 INFO @ Sat, 11 Dec 2021 08:05:48: start model_add_line... INFO @ Sat, 11 Dec 2021 08:05:48: start X-correlation... INFO @ Sat, 11 Dec 2021 08:05:48: end of X-cor INFO @ Sat, 11 Dec 2021 08:05:48: #2 finished! INFO @ Sat, 11 Dec 2021 08:05:48: #2 predicted fragment length is 212 bps INFO @ Sat, 11 Dec 2021 08:05:48: #2 alternative fragment length(s) may be 212 bps INFO @ Sat, 11 Dec 2021 08:05:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.05_model.r INFO @ Sat, 11 Dec 2021 08:05:48: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:05:48: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:05:50: 11000000 INFO @ Sat, 11 Dec 2021 08:05:54: 14000000 INFO @ Sat, 11 Dec 2021 08:05:57: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 08:06:02: 15000000 INFO @ Sat, 11 Dec 2021 08:06:05: 13000000 INFO @ Sat, 11 Dec 2021 08:06:07: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:06:10: 16000000 INFO @ Sat, 11 Dec 2021 08:06:12: 14000000 INFO @ Sat, 11 Dec 2021 08:06:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.05_peaks.xls INFO @ Sat, 11 Dec 2021 08:06:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:06:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.05_summits.bed INFO @ Sat, 11 Dec 2021 08:06:16: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (6825 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:06:19: 15000000 INFO @ Sat, 11 Dec 2021 08:06:19: 17000000 INFO @ Sat, 11 Dec 2021 08:06:26: 16000000 INFO @ Sat, 11 Dec 2021 08:06:27: 18000000 INFO @ Sat, 11 Dec 2021 08:06:33: 17000000 INFO @ Sat, 11 Dec 2021 08:06:36: 19000000 INFO @ Sat, 11 Dec 2021 08:06:37: #1 tag size is determined as 101 bps INFO @ Sat, 11 Dec 2021 08:06:37: #1 tag size = 101 INFO @ Sat, 11 Dec 2021 08:06:37: #1 total tags in treatment: 8888407 INFO @ Sat, 11 Dec 2021 08:06:37: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:06:37: #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 08:06:37: #1 tags after filtering in treatment: 8448104 INFO @ Sat, 11 Dec 2021 08:06:37: #1 Redundant rate of treatment: 0.05 INFO @ Sat, 11 Dec 2021 08:06:37: #1 finished! INFO @ Sat, 11 Dec 2021 08:06:37: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:06:37: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 08:06:38: #2 number of paired peaks: 1020 INFO @ Sat, 11 Dec 2021 08:06:38: start model_add_line... INFO @ Sat, 11 Dec 2021 08:06:38: start X-correlation... INFO @ Sat, 11 Dec 2021 08:06:38: end of X-cor INFO @ Sat, 11 Dec 2021 08:06:38: #2 finished! INFO @ Sat, 11 Dec 2021 08:06:38: #2 predicted fragment length is 212 bps INFO @ Sat, 11 Dec 2021 08:06:38: #2 alternative fragment length(s) may be 212 bps INFO @ Sat, 11 Dec 2021 08:06:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.10_model.r INFO @ Sat, 11 Dec 2021 08:06:38: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:06:38: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:06:40: 18000000 INFO @ Sat, 11 Dec 2021 08:06:46: 19000000 INFO @ Sat, 11 Dec 2021 08:06:48: #1 tag size is determined as 101 bps INFO @ Sat, 11 Dec 2021 08:06:48: #1 tag size = 101 INFO @ Sat, 11 Dec 2021 08:06:48: #1 total tags in treatment: 8888407 INFO @ Sat, 11 Dec 2021 08:06:48: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:06:48: #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 08:06:48: #1 tags after filtering in treatment: 8448104 INFO @ Sat, 11 Dec 2021 08:06:48: #1 Redundant rate of treatment: 0.05 INFO @ Sat, 11 Dec 2021 08:06:48: #1 finished! INFO @ Sat, 11 Dec 2021 08:06:48: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:06:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:06:48: #2 number of paired peaks: 1020 INFO @ Sat, 11 Dec 2021 08:06:48: start model_add_line... INFO @ Sat, 11 Dec 2021 08:06:48: start X-correlation... INFO @ Sat, 11 Dec 2021 08:06:48: end of X-cor INFO @ Sat, 11 Dec 2021 08:06:48: #2 finished! INFO @ Sat, 11 Dec 2021 08:06:48: #2 predicted fragment length is 212 bps INFO @ Sat, 11 Dec 2021 08:06:48: #2 alternative fragment length(s) may be 212 bps INFO @ Sat, 11 Dec 2021 08:06:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.20_model.r INFO @ Sat, 11 Dec 2021 08:06:48: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:06:48: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:06:57: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:07:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.10_peaks.xls INFO @ Sat, 11 Dec 2021 08:07:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:07:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.10_summits.bed INFO @ Sat, 11 Dec 2021 08:07:06: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (3852 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:07:08: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:07:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.20_peaks.xls INFO @ Sat, 11 Dec 2021 08:07:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:07:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8497044/SRX8497044.20_summits.bed INFO @ Sat, 11 Dec 2021 08:07:17: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (1722 records, 4 fields): 3 millis CompletedMACS2peakCalling