Job ID = 14170522 SRX = SRX8174951 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 47837786 spots for SRR11608679/SRR11608679.sra Written 47837786 spots for SRR11608679/SRR11608679.sra fastq に変換しました。 bowtie でマッピング中... Your job 14170980 ("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: 00:15:10 47837786 reads; of these: 47837786 (100.00%) were unpaired; of these: 7576361 (15.84%) aligned 0 times 35271648 (73.73%) aligned exactly 1 time 4989777 (10.43%) aligned >1 times 84.16% overall alignment rate Time searching: 00:15:10 Overall time: 00:15:10 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 20 files... [bam_rmdupse_core] 14935148 / 40261425 = 0.3710 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 07:34:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.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 07:34:38: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:34:38: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:34:46: 1000000 INFO @ Sat, 11 Dec 2021 07:34:54: 2000000 INFO @ Sat, 11 Dec 2021 07:35:03: 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 07:35:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.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 07:35:08: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:35:08: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:35:11: 4000000 INFO @ Sat, 11 Dec 2021 07:35:17: 1000000 INFO @ Sat, 11 Dec 2021 07:35:20: 5000000 INFO @ Sat, 11 Dec 2021 07:35:25: 2000000 INFO @ Sat, 11 Dec 2021 07:35:30: 6000000 INFO @ Sat, 11 Dec 2021 07:35:34: 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 07:35:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.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 07:35:38: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:35:38: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:35:39: 7000000 INFO @ Sat, 11 Dec 2021 07:35:43: 4000000 INFO @ Sat, 11 Dec 2021 07:35:47: 1000000 INFO @ Sat, 11 Dec 2021 07:35:48: 8000000 INFO @ Sat, 11 Dec 2021 07:35:52: 5000000 INFO @ Sat, 11 Dec 2021 07:35:56: 2000000 INFO @ Sat, 11 Dec 2021 07:35:57: 9000000 INFO @ Sat, 11 Dec 2021 07:36:01: 6000000 INFO @ Sat, 11 Dec 2021 07:36:05: 3000000 INFO @ Sat, 11 Dec 2021 07:36:06: 10000000 INFO @ Sat, 11 Dec 2021 07:36:10: 7000000 INFO @ Sat, 11 Dec 2021 07:36:14: 4000000 INFO @ Sat, 11 Dec 2021 07:36:15: 11000000 INFO @ Sat, 11 Dec 2021 07:36:19: 8000000 INFO @ Sat, 11 Dec 2021 07:36:23: 5000000 INFO @ Sat, 11 Dec 2021 07:36:25: 12000000 INFO @ Sat, 11 Dec 2021 07:36:28: 9000000 INFO @ Sat, 11 Dec 2021 07:36:32: 6000000 INFO @ Sat, 11 Dec 2021 07:36:34: 13000000 INFO @ Sat, 11 Dec 2021 07:36:38: 10000000 INFO @ Sat, 11 Dec 2021 07:36:42: 7000000 INFO @ Sat, 11 Dec 2021 07:36:43: 14000000 INFO @ Sat, 11 Dec 2021 07:36:47: 11000000 INFO @ Sat, 11 Dec 2021 07:36:51: 8000000 INFO @ Sat, 11 Dec 2021 07:36:52: 15000000 INFO @ Sat, 11 Dec 2021 07:36:56: 12000000 INFO @ Sat, 11 Dec 2021 07:37:00: 9000000 INFO @ Sat, 11 Dec 2021 07:37:01: 16000000 INFO @ Sat, 11 Dec 2021 07:37:05: 13000000 INFO @ Sat, 11 Dec 2021 07:37:09: 10000000 INFO @ Sat, 11 Dec 2021 07:37:10: 17000000 INFO @ Sat, 11 Dec 2021 07:37:14: 14000000 INFO @ Sat, 11 Dec 2021 07:37:18: 11000000 INFO @ Sat, 11 Dec 2021 07:37:19: 18000000 INFO @ Sat, 11 Dec 2021 07:37:24: 15000000 INFO @ Sat, 11 Dec 2021 07:37:27: 12000000 INFO @ Sat, 11 Dec 2021 07:37:28: 19000000 INFO @ Sat, 11 Dec 2021 07:37:33: 16000000 INFO @ Sat, 11 Dec 2021 07:37:36: 13000000 INFO @ Sat, 11 Dec 2021 07:37:37: 20000000 INFO @ Sat, 11 Dec 2021 07:37:42: 17000000 INFO @ Sat, 11 Dec 2021 07:37:45: 14000000 INFO @ Sat, 11 Dec 2021 07:37:47: 21000000 INFO @ Sat, 11 Dec 2021 07:37:50: 18000000 INFO @ Sat, 11 Dec 2021 07:37:54: 15000000 INFO @ Sat, 11 Dec 2021 07:37:56: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 07:37:59: 19000000 INFO @ Sat, 11 Dec 2021 07:38:03: 16000000 INFO @ Sat, 11 Dec 2021 07:38:05: 23000000 INFO @ Sat, 11 Dec 2021 07:38:09: 20000000 INFO @ Sat, 11 Dec 2021 07:38:12: 17000000 INFO @ Sat, 11 Dec 2021 07:38:14: 24000000 INFO @ Sat, 11 Dec 2021 07:38:19: 21000000 INFO @ Sat, 11 Dec 2021 07:38:21: 18000000 INFO @ Sat, 11 Dec 2021 07:38:23: 25000000 INFO @ Sat, 11 Dec 2021 07:38:26: #1 tag size is determined as 75 bps INFO @ Sat, 11 Dec 2021 07:38:26: #1 tag size = 75 INFO @ Sat, 11 Dec 2021 07:38:26: #1 total tags in treatment: 25326277 INFO @ Sat, 11 Dec 2021 07:38:26: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:38:26: #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 07:38:27: #1 tags after filtering in treatment: 25326277 INFO @ Sat, 11 Dec 2021 07:38:27: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 07:38:27: #1 finished! INFO @ Sat, 11 Dec 2021 07:38:27: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:38:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:38:28: 22000000 INFO @ Sat, 11 Dec 2021 07:38:28: #2 number of paired peaks: 753 WARNING @ Sat, 11 Dec 2021 07:38:28: Fewer paired peaks (753) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 753 pairs to build model! INFO @ Sat, 11 Dec 2021 07:38:28: start model_add_line... INFO @ Sat, 11 Dec 2021 07:38:29: start X-correlation... INFO @ Sat, 11 Dec 2021 07:38:29: end of X-cor INFO @ Sat, 11 Dec 2021 07:38:29: #2 finished! INFO @ Sat, 11 Dec 2021 07:38:29: #2 predicted fragment length is 151 bps INFO @ Sat, 11 Dec 2021 07:38:29: #2 alternative fragment length(s) may be 151 bps INFO @ Sat, 11 Dec 2021 07:38:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.05_model.r INFO @ Sat, 11 Dec 2021 07:38:29: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:38:29: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:38:30: 19000000 INFO @ Sat, 11 Dec 2021 07:38:37: 23000000 INFO @ Sat, 11 Dec 2021 07:38:39: 20000000 INFO @ Sat, 11 Dec 2021 07:38:46: 24000000 INFO @ Sat, 11 Dec 2021 07:38:48: 21000000 INFO @ Sat, 11 Dec 2021 07:38:55: 25000000 INFO @ Sat, 11 Dec 2021 07:38:56: 22000000 INFO @ Sat, 11 Dec 2021 07:38:58: #1 tag size is determined as 75 bps INFO @ Sat, 11 Dec 2021 07:38:58: #1 tag size = 75 INFO @ Sat, 11 Dec 2021 07:38:58: #1 total tags in treatment: 25326277 INFO @ Sat, 11 Dec 2021 07:38:58: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:38:58: #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 07:38:59: #1 tags after filtering in treatment: 25326277 INFO @ Sat, 11 Dec 2021 07:38:59: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 07:38:59: #1 finished! INFO @ Sat, 11 Dec 2021 07:38:59: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:38:59: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 07:39:00: #2 number of paired peaks: 753 WARNING @ Sat, 11 Dec 2021 07:39:00: Fewer paired peaks (753) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 753 pairs to build model! INFO @ Sat, 11 Dec 2021 07:39:00: start model_add_line... INFO @ Sat, 11 Dec 2021 07:39:00: start X-correlation... INFO @ Sat, 11 Dec 2021 07:39:00: end of X-cor INFO @ Sat, 11 Dec 2021 07:39:00: #2 finished! INFO @ Sat, 11 Dec 2021 07:39:00: #2 predicted fragment length is 151 bps INFO @ Sat, 11 Dec 2021 07:39:00: #2 alternative fragment length(s) may be 151 bps INFO @ Sat, 11 Dec 2021 07:39:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.10_model.r INFO @ Sat, 11 Dec 2021 07:39:01: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:39:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:39:05: 23000000 INFO @ Sat, 11 Dec 2021 07:39:13: 24000000 INFO @ Sat, 11 Dec 2021 07:39:21: 25000000 INFO @ Sat, 11 Dec 2021 07:39:22: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:39:24: #1 tag size is determined as 75 bps INFO @ Sat, 11 Dec 2021 07:39:24: #1 tag size = 75 INFO @ Sat, 11 Dec 2021 07:39:24: #1 total tags in treatment: 25326277 INFO @ Sat, 11 Dec 2021 07:39:24: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:39:24: #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 07:39:24: #1 tags after filtering in treatment: 25326277 INFO @ Sat, 11 Dec 2021 07:39:24: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 07:39:24: #1 finished! INFO @ Sat, 11 Dec 2021 07:39:24: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:39:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:39:26: #2 number of paired peaks: 753 WARNING @ Sat, 11 Dec 2021 07:39:26: Fewer paired peaks (753) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 753 pairs to build model! INFO @ Sat, 11 Dec 2021 07:39:26: start model_add_line... INFO @ Sat, 11 Dec 2021 07:39:26: start X-correlation... INFO @ Sat, 11 Dec 2021 07:39:26: end of X-cor INFO @ Sat, 11 Dec 2021 07:39:26: #2 finished! INFO @ Sat, 11 Dec 2021 07:39:26: #2 predicted fragment length is 151 bps INFO @ Sat, 11 Dec 2021 07:39:26: #2 alternative fragment length(s) may be 151 bps INFO @ Sat, 11 Dec 2021 07:39:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.20_model.r INFO @ Sat, 11 Dec 2021 07:39:26: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:39:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:39:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.05_peaks.xls INFO @ Sat, 11 Dec 2021 07:39:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:39:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.05_summits.bed INFO @ Sat, 11 Dec 2021 07:39:50: Done! pass1 - making usageList (14 chroms): 9 millis pass2 - checking and writing primary data (50118 records, 4 fields): 60 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 07:39:53: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:40:19: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:40:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.10_peaks.xls INFO @ Sat, 11 Dec 2021 07:40:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:40:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.10_summits.bed INFO @ Sat, 11 Dec 2021 07:40:20: Done! pass1 - making usageList (14 chroms): 7 millis pass2 - checking and writing primary data (36059 records, 4 fields): 43 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 07:40:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.20_peaks.xls INFO @ Sat, 11 Dec 2021 07:40:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:40:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8174951/SRX8174951.20_summits.bed INFO @ Sat, 11 Dec 2021 07:40:45: Done! pass1 - making usageList (14 chroms): 4 millis pass2 - checking and writing primary data (19348 records, 4 fields): 24 millis CompletedMACS2peakCalling