Job ID = 14168444 SRX = ERX3978866 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 69723190 spots for ERR3975935/ERR3975935.sra Written 69723190 spots for ERR3975935/ERR3975935.sra fastq に変換しました。 bowtie でマッピング中... Your job 14170035 ("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: 04:07:09 69723190 reads; of these: 69723190 (100.00%) were paired; of these: 8698450 (12.48%) aligned concordantly 0 times 48779669 (69.96%) aligned concordantly exactly 1 time 12245071 (17.56%) aligned concordantly >1 times ---- 8698450 pairs aligned concordantly 0 times; of these: 1561666 (17.95%) aligned discordantly 1 time ---- 7136784 pairs aligned 0 times concordantly or discordantly; of these: 14273568 mates make up the pairs; of these: 6509892 (45.61%) aligned 0 times 4072204 (28.53%) aligned exactly 1 time 3691472 (25.86%) aligned >1 times 95.33% overall alignment rate Time searching: 04:07:09 Overall time: 04:07:09 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 56 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] 46396911 / 62332946 = 0.7443 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 23:10:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.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 23:10:00: #1 read tag files... INFO @ Fri, 10 Dec 2021 23:10:00: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 23:10:07: 1000000 INFO @ Fri, 10 Dec 2021 23:10:14: 2000000 INFO @ Fri, 10 Dec 2021 23:10:21: 3000000 INFO @ Fri, 10 Dec 2021 23:10:26: 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 @ Fri, 10 Dec 2021 23:10:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.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 23:10:29: #1 read tag files... INFO @ Fri, 10 Dec 2021 23:10:29: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 23:10:33: 5000000 INFO @ Fri, 10 Dec 2021 23:10:36: 1000000 INFO @ Fri, 10 Dec 2021 23:10:39: 6000000 INFO @ Fri, 10 Dec 2021 23:10:42: 2000000 INFO @ Fri, 10 Dec 2021 23:10:45: 7000000 INFO @ Fri, 10 Dec 2021 23:10:49: 3000000 INFO @ Fri, 10 Dec 2021 23:10:52: 8000000 INFO @ Fri, 10 Dec 2021 23:10:55: 4000000 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 23:10:58: 9000000 INFO @ Fri, 10 Dec 2021 23:10:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.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 23:10:59: #1 read tag files... INFO @ Fri, 10 Dec 2021 23:10:59: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 23:11:02: 5000000 INFO @ Fri, 10 Dec 2021 23:11:04: 10000000 INFO @ Fri, 10 Dec 2021 23:11:06: 1000000 INFO @ Fri, 10 Dec 2021 23:11:08: 6000000 INFO @ Fri, 10 Dec 2021 23:11:11: 11000000 INFO @ Fri, 10 Dec 2021 23:11:12: 2000000 INFO @ Fri, 10 Dec 2021 23:11:14: 7000000 INFO @ Fri, 10 Dec 2021 23:11:18: 12000000 INFO @ Fri, 10 Dec 2021 23:11:19: 3000000 INFO @ Fri, 10 Dec 2021 23:11:21: 8000000 INFO @ Fri, 10 Dec 2021 23:11:24: 13000000 INFO @ Fri, 10 Dec 2021 23:11:25: 4000000 INFO @ Fri, 10 Dec 2021 23:11:27: 9000000 INFO @ Fri, 10 Dec 2021 23:11:31: 14000000 INFO @ Fri, 10 Dec 2021 23:11:32: 5000000 INFO @ Fri, 10 Dec 2021 23:11:34: 10000000 INFO @ Fri, 10 Dec 2021 23:11:37: 15000000 INFO @ Fri, 10 Dec 2021 23:11:39: 6000000 INFO @ Fri, 10 Dec 2021 23:11:40: 11000000 INFO @ Fri, 10 Dec 2021 23:11:44: 16000000 INFO @ Fri, 10 Dec 2021 23:11:45: 7000000 INFO @ Fri, 10 Dec 2021 23:11:47: 12000000 INFO @ Fri, 10 Dec 2021 23:11:50: 17000000 INFO @ Fri, 10 Dec 2021 23:11:52: 8000000 INFO @ Fri, 10 Dec 2021 23:11:53: 13000000 INFO @ Fri, 10 Dec 2021 23:11:57: 18000000 INFO @ Fri, 10 Dec 2021 23:11:58: 9000000 INFO @ Fri, 10 Dec 2021 23:12:00: 14000000 INFO @ Fri, 10 Dec 2021 23:12:04: 19000000 INFO @ Fri, 10 Dec 2021 23:12:05: 10000000 INFO @ Fri, 10 Dec 2021 23:12:06: 15000000 INFO @ Fri, 10 Dec 2021 23:12:10: 20000000 INFO @ Fri, 10 Dec 2021 23:12:11: 11000000 INFO @ Fri, 10 Dec 2021 23:12:13: 16000000 INFO @ Fri, 10 Dec 2021 23:12:17: 21000000 INFO @ Fri, 10 Dec 2021 23:12:18: 12000000 INFO @ Fri, 10 Dec 2021 23:12:19: 17000000 INFO @ Fri, 10 Dec 2021 23:12:23: 22000000 INFO @ Fri, 10 Dec 2021 23:12:24: 13000000 INFO @ Fri, 10 Dec 2021 23:12:26: 18000000 INFO @ Fri, 10 Dec 2021 23:12:30: 23000000 INFO @ Fri, 10 Dec 2021 23:12:31: 14000000 INFO @ Fri, 10 Dec 2021 23:12:32: 19000000 INFO @ Fri, 10 Dec 2021 23:12:36: 24000000 INFO @ Fri, 10 Dec 2021 23:12:38: 15000000 INFO @ Fri, 10 Dec 2021 23:12:39: 20000000 INFO @ Fri, 10 Dec 2021 23:12:43: 25000000 INFO @ Fri, 10 Dec 2021 23:12:44: 16000000 INFO @ Fri, 10 Dec 2021 23:12:45: 21000000 INFO @ Fri, 10 Dec 2021 23:12:50: 26000000 INFO @ Fri, 10 Dec 2021 23:12:51: 17000000 INFO @ Fri, 10 Dec 2021 23:12:52: 22000000 INFO @ Fri, 10 Dec 2021 23:12:56: 27000000 INFO @ Fri, 10 Dec 2021 23:12:57: 18000000 INFO @ Fri, 10 Dec 2021 23:12:58: 23000000 INFO @ Fri, 10 Dec 2021 23:13:03: 28000000 INFO @ Fri, 10 Dec 2021 23:13:04: 19000000 INFO @ Fri, 10 Dec 2021 23:13:05: 24000000 INFO @ Fri, 10 Dec 2021 23:13:10: 29000000 INFO @ Fri, 10 Dec 2021 23:13:10: 20000000 INFO @ Fri, 10 Dec 2021 23:13:11: 25000000 INFO @ Fri, 10 Dec 2021 23:13:16: 30000000 INFO @ Fri, 10 Dec 2021 23:13:17: 21000000 INFO @ Fri, 10 Dec 2021 23:13:18: 26000000 INFO @ Fri, 10 Dec 2021 23:13:23: 31000000 INFO @ Fri, 10 Dec 2021 23:13:24: 22000000 INFO @ Fri, 10 Dec 2021 23:13:24: 27000000 INFO @ Fri, 10 Dec 2021 23:13:30: 32000000 INFO @ Fri, 10 Dec 2021 23:13:30: 23000000 INFO @ Fri, 10 Dec 2021 23:13:31: 28000000 INFO @ Fri, 10 Dec 2021 23:13:36: 33000000 INFO @ Fri, 10 Dec 2021 23:13:37: 24000000 INFO @ Fri, 10 Dec 2021 23:13:38: 29000000 INFO @ Fri, 10 Dec 2021 23:13:43: 34000000 INFO @ Fri, 10 Dec 2021 23:13:43: 25000000 INFO @ Fri, 10 Dec 2021 23:13:44: 30000000 INFO @ Fri, 10 Dec 2021 23:13:49: 35000000 INFO @ Fri, 10 Dec 2021 23:13:50: 26000000 INFO @ Fri, 10 Dec 2021 23:13:51: 31000000 INFO @ Fri, 10 Dec 2021 23:13:56: 36000000 INFO @ Fri, 10 Dec 2021 23:13:56: 27000000 INFO @ Fri, 10 Dec 2021 23:13:57: 32000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 23:14:03: 37000000 INFO @ Fri, 10 Dec 2021 23:14:03: 28000000 INFO @ Fri, 10 Dec 2021 23:14:04: 33000000 INFO @ Fri, 10 Dec 2021 23:14:09: 38000000 INFO @ Fri, 10 Dec 2021 23:14:10: 29000000 INFO @ Fri, 10 Dec 2021 23:14:10: 34000000 INFO @ Fri, 10 Dec 2021 23:14:16: 39000000 INFO @ Fri, 10 Dec 2021 23:14:16: 30000000 INFO @ Fri, 10 Dec 2021 23:14:17: 35000000 INFO @ Fri, 10 Dec 2021 23:14:22: 40000000 INFO @ Fri, 10 Dec 2021 23:14:23: 31000000 INFO @ Fri, 10 Dec 2021 23:14:23: 36000000 INFO @ Fri, 10 Dec 2021 23:14:23: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 23:14:23: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 23:14:23: #1 total tags in treatment: 15667635 INFO @ Fri, 10 Dec 2021 23:14:23: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 23:14:23: #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 23:14:24: #1 tags after filtering in treatment: 13582644 INFO @ Fri, 10 Dec 2021 23:14:24: #1 Redundant rate of treatment: 0.13 INFO @ Fri, 10 Dec 2021 23:14:24: #1 finished! INFO @ Fri, 10 Dec 2021 23:14:24: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 23:14:24: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 23:14:25: #2 number of paired peaks: 1553 INFO @ Fri, 10 Dec 2021 23:14:25: start model_add_line... INFO @ Fri, 10 Dec 2021 23:14:25: start X-correlation... INFO @ Fri, 10 Dec 2021 23:14:25: end of X-cor INFO @ Fri, 10 Dec 2021 23:14:25: #2 finished! INFO @ Fri, 10 Dec 2021 23:14:25: #2 predicted fragment length is 171 bps INFO @ Fri, 10 Dec 2021 23:14:25: #2 alternative fragment length(s) may be 171 bps INFO @ Fri, 10 Dec 2021 23:14:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.05_model.r INFO @ Fri, 10 Dec 2021 23:14:25: #3 Call peaks... INFO @ Fri, 10 Dec 2021 23:14:25: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 23:14:29: 37000000 INFO @ Fri, 10 Dec 2021 23:14:30: 32000000 INFO @ Fri, 10 Dec 2021 23:14:36: 38000000 INFO @ Fri, 10 Dec 2021 23:14:36: 33000000 INFO @ Fri, 10 Dec 2021 23:14:42: 39000000 INFO @ Fri, 10 Dec 2021 23:14:43: 34000000 INFO @ Fri, 10 Dec 2021 23:14:48: 40000000 INFO @ Fri, 10 Dec 2021 23:14:49: 35000000 INFO @ Fri, 10 Dec 2021 23:14:49: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 23:14:49: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 23:14:49: #1 total tags in treatment: 15667635 INFO @ Fri, 10 Dec 2021 23:14:49: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 23:14:49: #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 23:14:50: #1 tags after filtering in treatment: 13582644 INFO @ Fri, 10 Dec 2021 23:14:50: #1 Redundant rate of treatment: 0.13 INFO @ Fri, 10 Dec 2021 23:14:50: #1 finished! INFO @ Fri, 10 Dec 2021 23:14:50: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 23:14:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 23:14:51: #2 number of paired peaks: 1553 INFO @ Fri, 10 Dec 2021 23:14:51: start model_add_line... INFO @ Fri, 10 Dec 2021 23:14:51: start X-correlation... INFO @ Fri, 10 Dec 2021 23:14:51: end of X-cor INFO @ Fri, 10 Dec 2021 23:14:51: #2 finished! INFO @ Fri, 10 Dec 2021 23:14:51: #2 predicted fragment length is 171 bps INFO @ Fri, 10 Dec 2021 23:14:51: #2 alternative fragment length(s) may be 171 bps INFO @ Fri, 10 Dec 2021 23:14:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.10_model.r INFO @ Fri, 10 Dec 2021 23:14:51: #3 Call peaks... INFO @ Fri, 10 Dec 2021 23:14:51: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 23:14:55: 36000000 INFO @ Fri, 10 Dec 2021 23:14:58: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 23:15:01: 37000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 23:15:06: 38000000 INFO @ Fri, 10 Dec 2021 23:15:12: 39000000 INFO @ Fri, 10 Dec 2021 23:15:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.05_peaks.xls INFO @ Fri, 10 Dec 2021 23:15:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 23:15:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.05_summits.bed INFO @ Fri, 10 Dec 2021 23:15:15: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (13156 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 23:15:18: 40000000 INFO @ Fri, 10 Dec 2021 23:15:19: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 23:15:19: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 23:15:19: #1 total tags in treatment: 15667635 INFO @ Fri, 10 Dec 2021 23:15:19: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 23:15:19: #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 23:15:19: #1 tags after filtering in treatment: 13582644 INFO @ Fri, 10 Dec 2021 23:15:19: #1 Redundant rate of treatment: 0.13 INFO @ Fri, 10 Dec 2021 23:15:19: #1 finished! INFO @ Fri, 10 Dec 2021 23:15:19: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 23:15:19: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 23:15:20: #2 number of paired peaks: 1553 INFO @ Fri, 10 Dec 2021 23:15:20: start model_add_line... INFO @ Fri, 10 Dec 2021 23:15:20: start X-correlation... INFO @ Fri, 10 Dec 2021 23:15:20: end of X-cor INFO @ Fri, 10 Dec 2021 23:15:20: #2 finished! INFO @ Fri, 10 Dec 2021 23:15:20: #2 predicted fragment length is 171 bps INFO @ Fri, 10 Dec 2021 23:15:20: #2 alternative fragment length(s) may be 171 bps INFO @ Fri, 10 Dec 2021 23:15:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.20_model.r INFO @ Fri, 10 Dec 2021 23:15:20: #3 Call peaks... INFO @ Fri, 10 Dec 2021 23:15:20: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 23:15:24: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 23:15:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.10_peaks.xls INFO @ Fri, 10 Dec 2021 23:15:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 23:15:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.10_summits.bed INFO @ Fri, 10 Dec 2021 23:15:40: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (8510 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 23:15:52: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 23:16:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.20_peaks.xls INFO @ Fri, 10 Dec 2021 23:16:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 23:16:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978866/ERX3978866.20_summits.bed INFO @ Fri, 10 Dec 2021 23:16:09: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (4264 records, 4 fields): 7 millis CompletedMACS2peakCalling