Job ID = 14172111 SRX = SRX10089760 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 27506975 spots for SRR13700647/SRR13700647.sra Written 27506975 spots for SRR13700647/SRR13700647.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172572 ("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: 00:05:24 27506975 reads; of these: 27506975 (100.00%) were unpaired; of these: 2956566 (10.75%) aligned 0 times 21009594 (76.38%) aligned exactly 1 time 3540815 (12.87%) aligned >1 times 89.25% overall alignment rate Time searching: 00:05:24 Overall time: 00:05:24 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 8 files... [bam_rmdupse_core] 5402084 / 24550409 = 0.2200 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 14:28:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.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 14:28:30: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:28:30: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:28:35: 1000000 INFO @ Sat, 11 Dec 2021 14:28:40: 2000000 INFO @ Sat, 11 Dec 2021 14:28:45: 3000000 INFO @ Sat, 11 Dec 2021 14:28:51: 4000000 INFO @ Sat, 11 Dec 2021 14:28:56: 5000000 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 14:29:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.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 14:29:00: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:29:00: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:29:01: 6000000 INFO @ Sat, 11 Dec 2021 14:29:05: 1000000 INFO @ Sat, 11 Dec 2021 14:29:07: 7000000 INFO @ Sat, 11 Dec 2021 14:29:11: 2000000 INFO @ Sat, 11 Dec 2021 14:29:13: 8000000 INFO @ Sat, 11 Dec 2021 14:29:17: 3000000 INFO @ Sat, 11 Dec 2021 14:29:19: 9000000 INFO @ Sat, 11 Dec 2021 14:29:23: 4000000 INFO @ Sat, 11 Dec 2021 14:29:25: 10000000 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 14:29:29: 5000000 INFO @ Sat, 11 Dec 2021 14:29:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.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 14:29:30: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:29:30: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:29:31: 11000000 INFO @ Sat, 11 Dec 2021 14:29:35: 6000000 INFO @ Sat, 11 Dec 2021 14:29:36: 1000000 INFO @ Sat, 11 Dec 2021 14:29:37: 12000000 INFO @ Sat, 11 Dec 2021 14:29:41: 7000000 INFO @ Sat, 11 Dec 2021 14:29:42: 2000000 INFO @ Sat, 11 Dec 2021 14:29:43: 13000000 INFO @ Sat, 11 Dec 2021 14:29:48: 8000000 INFO @ Sat, 11 Dec 2021 14:29:48: 3000000 INFO @ Sat, 11 Dec 2021 14:29:49: 14000000 INFO @ Sat, 11 Dec 2021 14:29:54: 9000000 INFO @ Sat, 11 Dec 2021 14:29:54: 4000000 INFO @ Sat, 11 Dec 2021 14:29:55: 15000000 INFO @ Sat, 11 Dec 2021 14:30:00: 10000000 INFO @ Sat, 11 Dec 2021 14:30:00: 5000000 INFO @ Sat, 11 Dec 2021 14:30:01: 16000000 INFO @ Sat, 11 Dec 2021 14:30:06: 11000000 INFO @ Sat, 11 Dec 2021 14:30:06: 6000000 INFO @ Sat, 11 Dec 2021 14:30:07: 17000000 INFO @ Sat, 11 Dec 2021 14:30:12: 12000000 INFO @ Sat, 11 Dec 2021 14:30:12: 7000000 INFO @ Sat, 11 Dec 2021 14:30:13: 18000000 INFO @ Sat, 11 Dec 2021 14:30:18: 13000000 INFO @ Sat, 11 Dec 2021 14:30:18: 8000000 INFO @ Sat, 11 Dec 2021 14:30:19: 19000000 INFO @ Sat, 11 Dec 2021 14:30:20: #1 tag size is determined as 40 bps INFO @ Sat, 11 Dec 2021 14:30:20: #1 tag size = 40 INFO @ Sat, 11 Dec 2021 14:30:20: #1 total tags in treatment: 19148325 INFO @ Sat, 11 Dec 2021 14:30:20: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:30:20: #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 14:30:21: #1 tags after filtering in treatment: 19148325 INFO @ Sat, 11 Dec 2021 14:30:21: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 14:30:21: #1 finished! INFO @ Sat, 11 Dec 2021 14:30:21: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:30:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:30:22: #2 number of paired peaks: 1303 INFO @ Sat, 11 Dec 2021 14:30:22: start model_add_line... INFO @ Sat, 11 Dec 2021 14:30:22: start X-correlation... INFO @ Sat, 11 Dec 2021 14:30:22: end of X-cor INFO @ Sat, 11 Dec 2021 14:30:22: #2 finished! INFO @ Sat, 11 Dec 2021 14:30:22: #2 predicted fragment length is 196 bps INFO @ Sat, 11 Dec 2021 14:30:22: #2 alternative fragment length(s) may be 196 bps INFO @ Sat, 11 Dec 2021 14:30:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.05_model.r INFO @ Sat, 11 Dec 2021 14:30:22: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:30:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 14:30:24: 14000000 INFO @ Sat, 11 Dec 2021 14:30:24: 9000000 INFO @ Sat, 11 Dec 2021 14:30:30: 15000000 INFO @ Sat, 11 Dec 2021 14:30:30: 10000000 INFO @ Sat, 11 Dec 2021 14:30:36: 16000000 INFO @ Sat, 11 Dec 2021 14:30:36: 11000000 INFO @ Sat, 11 Dec 2021 14:30:42: 17000000 INFO @ Sat, 11 Dec 2021 14:30:42: 12000000 INFO @ Sat, 11 Dec 2021 14:30:48: 18000000 INFO @ Sat, 11 Dec 2021 14:30:48: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 14:30:54: 14000000 INFO @ Sat, 11 Dec 2021 14:30:54: 19000000 INFO @ Sat, 11 Dec 2021 14:30:55: #1 tag size is determined as 40 bps INFO @ Sat, 11 Dec 2021 14:30:55: #1 tag size = 40 INFO @ Sat, 11 Dec 2021 14:30:55: #1 total tags in treatment: 19148325 INFO @ Sat, 11 Dec 2021 14:30:55: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:30:55: #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 14:30:55: #1 tags after filtering in treatment: 19148325 INFO @ Sat, 11 Dec 2021 14:30:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 14:30:55: #1 finished! INFO @ Sat, 11 Dec 2021 14:30:55: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:30:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:30:57: #2 number of paired peaks: 1303 INFO @ Sat, 11 Dec 2021 14:30:57: start model_add_line... INFO @ Sat, 11 Dec 2021 14:30:57: start X-correlation... INFO @ Sat, 11 Dec 2021 14:30:57: end of X-cor INFO @ Sat, 11 Dec 2021 14:30:57: #2 finished! INFO @ Sat, 11 Dec 2021 14:30:57: #2 predicted fragment length is 196 bps INFO @ Sat, 11 Dec 2021 14:30:57: #2 alternative fragment length(s) may be 196 bps INFO @ Sat, 11 Dec 2021 14:30:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.10_model.r INFO @ Sat, 11 Dec 2021 14:30:57: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:30:57: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 14:31:00: 15000000 INFO @ Sat, 11 Dec 2021 14:31:04: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 14:31:06: 16000000 INFO @ Sat, 11 Dec 2021 14:31:11: 17000000 INFO @ Sat, 11 Dec 2021 14:31:17: 18000000 INFO @ Sat, 11 Dec 2021 14:31:23: 19000000 INFO @ Sat, 11 Dec 2021 14:31:23: #1 tag size is determined as 40 bps INFO @ Sat, 11 Dec 2021 14:31:23: #1 tag size = 40 INFO @ Sat, 11 Dec 2021 14:31:23: #1 total tags in treatment: 19148325 INFO @ Sat, 11 Dec 2021 14:31:23: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:31:23: #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 14:31:24: #1 tags after filtering in treatment: 19148325 INFO @ Sat, 11 Dec 2021 14:31:24: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 14:31:24: #1 finished! INFO @ Sat, 11 Dec 2021 14:31:24: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:31:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:31:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.05_peaks.xls INFO @ Sat, 11 Dec 2021 14:31:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:31:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.05_summits.bed INFO @ Sat, 11 Dec 2021 14:31:25: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (10068 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 14:31:25: #2 number of paired peaks: 1303 INFO @ Sat, 11 Dec 2021 14:31:25: start model_add_line... INFO @ Sat, 11 Dec 2021 14:31:25: start X-correlation... INFO @ Sat, 11 Dec 2021 14:31:25: end of X-cor INFO @ Sat, 11 Dec 2021 14:31:25: #2 finished! INFO @ Sat, 11 Dec 2021 14:31:25: #2 predicted fragment length is 196 bps INFO @ Sat, 11 Dec 2021 14:31:25: #2 alternative fragment length(s) may be 196 bps INFO @ Sat, 11 Dec 2021 14:31:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.20_model.r INFO @ Sat, 11 Dec 2021 14:31:25: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:31:25: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 14:31:39: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 14:32:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.10_peaks.xls INFO @ Sat, 11 Dec 2021 14:32:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:32:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.10_summits.bed INFO @ Sat, 11 Dec 2021 14:32:00: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (7264 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 14:32:07: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 14:32:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.20_peaks.xls INFO @ Sat, 11 Dec 2021 14:32:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:32:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX10089760/SRX10089760.20_summits.bed INFO @ Sat, 11 Dec 2021 14:32:27: Done! pass1 - making usageList (10 chroms): 1 millis pass2 - checking and writing primary data (4376 records, 4 fields): 6 millis CompletedMACS2peakCalling