Job ID = 14168397 SRX = ERX3978860 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 57366844 spots for ERR3975929/ERR3975929.sra Written 57366844 spots for ERR3975929/ERR3975929.sra fastq に変換しました。 bowtie でマッピング中... Your job 14169878 ("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: 02:34:28 57366844 reads; of these: 57366844 (100.00%) were paired; of these: 6958091 (12.13%) aligned concordantly 0 times 39105097 (68.17%) aligned concordantly exactly 1 time 11303656 (19.70%) aligned concordantly >1 times ---- 6958091 pairs aligned concordantly 0 times; of these: 1202616 (17.28%) aligned discordantly 1 time ---- 5755475 pairs aligned 0 times concordantly or discordantly; of these: 11510950 mates make up the pairs; of these: 5874541 (51.03%) aligned 0 times 2591758 (22.52%) aligned exactly 1 time 3044651 (26.45%) aligned >1 times 94.88% overall alignment rate Time searching: 02:34:28 Overall time: 02:34:28 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 48 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] 35679034 / 51355657 = 0.6947 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 21:21:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.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 21:21:25: #1 read tag files... INFO @ Fri, 10 Dec 2021 21:21:25: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 21:21:31: 1000000 INFO @ Fri, 10 Dec 2021 21:21:38: 2000000 INFO @ Fri, 10 Dec 2021 21:21:45: 3000000 INFO @ Fri, 10 Dec 2021 21:21:51: 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 21:21:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.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 21:21:55: #1 read tag files... INFO @ Fri, 10 Dec 2021 21:21:55: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 21:21:58: 5000000 INFO @ Fri, 10 Dec 2021 21:22:01: 1000000 INFO @ Fri, 10 Dec 2021 21:22:06: 6000000 INFO @ Fri, 10 Dec 2021 21:22:07: 2000000 INFO @ Fri, 10 Dec 2021 21:22:13: 7000000 INFO @ Fri, 10 Dec 2021 21:22:13: 3000000 INFO @ Fri, 10 Dec 2021 21:22:19: 4000000 INFO @ Fri, 10 Dec 2021 21:22:20: 8000000 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 21:22:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.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 21:22:25: #1 read tag files... INFO @ Fri, 10 Dec 2021 21:22:25: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 21:22:26: 5000000 INFO @ Fri, 10 Dec 2021 21:22:28: 9000000 INFO @ Fri, 10 Dec 2021 21:22:32: 6000000 INFO @ Fri, 10 Dec 2021 21:22:32: 1000000 INFO @ Fri, 10 Dec 2021 21:22:35: 10000000 INFO @ Fri, 10 Dec 2021 21:22:38: 7000000 INFO @ Fri, 10 Dec 2021 21:22:39: 2000000 INFO @ Fri, 10 Dec 2021 21:22:42: 11000000 INFO @ Fri, 10 Dec 2021 21:22:44: 8000000 INFO @ Fri, 10 Dec 2021 21:22:47: 3000000 INFO @ Fri, 10 Dec 2021 21:22:50: 12000000 INFO @ Fri, 10 Dec 2021 21:22:51: 9000000 INFO @ Fri, 10 Dec 2021 21:22:54: 4000000 INFO @ Fri, 10 Dec 2021 21:22:57: 10000000 INFO @ Fri, 10 Dec 2021 21:22:57: 13000000 INFO @ Fri, 10 Dec 2021 21:23:01: 5000000 INFO @ Fri, 10 Dec 2021 21:23:03: 11000000 INFO @ Fri, 10 Dec 2021 21:23:05: 14000000 INFO @ Fri, 10 Dec 2021 21:23:09: 6000000 INFO @ Fri, 10 Dec 2021 21:23:09: 12000000 INFO @ Fri, 10 Dec 2021 21:23:12: 15000000 INFO @ Fri, 10 Dec 2021 21:23:16: 13000000 INFO @ Fri, 10 Dec 2021 21:23:16: 7000000 INFO @ Fri, 10 Dec 2021 21:23:19: 16000000 INFO @ Fri, 10 Dec 2021 21:23:22: 14000000 INFO @ Fri, 10 Dec 2021 21:23:23: 8000000 INFO @ Fri, 10 Dec 2021 21:23:26: 17000000 INFO @ Fri, 10 Dec 2021 21:23:28: 15000000 INFO @ Fri, 10 Dec 2021 21:23:30: 9000000 INFO @ Fri, 10 Dec 2021 21:23:34: 18000000 INFO @ Fri, 10 Dec 2021 21:23:34: 16000000 INFO @ Fri, 10 Dec 2021 21:23:38: 10000000 INFO @ Fri, 10 Dec 2021 21:23:41: 17000000 INFO @ Fri, 10 Dec 2021 21:23:41: 19000000 INFO @ Fri, 10 Dec 2021 21:23:45: 11000000 INFO @ Fri, 10 Dec 2021 21:23:47: 18000000 INFO @ Fri, 10 Dec 2021 21:23:48: 20000000 INFO @ Fri, 10 Dec 2021 21:23:52: 12000000 INFO @ Fri, 10 Dec 2021 21:23:53: 19000000 INFO @ Fri, 10 Dec 2021 21:23:55: 21000000 INFO @ Fri, 10 Dec 2021 21:23:59: 20000000 INFO @ Fri, 10 Dec 2021 21:23:59: 13000000 INFO @ Fri, 10 Dec 2021 21:24:02: 22000000 INFO @ Fri, 10 Dec 2021 21:24:05: 21000000 INFO @ Fri, 10 Dec 2021 21:24:07: 14000000 INFO @ Fri, 10 Dec 2021 21:24:09: 23000000 INFO @ Fri, 10 Dec 2021 21:24:11: 22000000 INFO @ Fri, 10 Dec 2021 21:24:14: 15000000 INFO @ Fri, 10 Dec 2021 21:24:17: 24000000 INFO @ Fri, 10 Dec 2021 21:24:18: 23000000 INFO @ Fri, 10 Dec 2021 21:24:21: 16000000 INFO @ Fri, 10 Dec 2021 21:24:24: 24000000 INFO @ Fri, 10 Dec 2021 21:24:24: 25000000 INFO @ Fri, 10 Dec 2021 21:24:28: 17000000 INFO @ Fri, 10 Dec 2021 21:24:30: 25000000 INFO @ Fri, 10 Dec 2021 21:24:31: 26000000 INFO @ Fri, 10 Dec 2021 21:24:36: 18000000 INFO @ Fri, 10 Dec 2021 21:24:37: 26000000 INFO @ Fri, 10 Dec 2021 21:24:38: 27000000 INFO @ Fri, 10 Dec 2021 21:24:43: 27000000 INFO @ Fri, 10 Dec 2021 21:24:43: 19000000 INFO @ Fri, 10 Dec 2021 21:24:46: 28000000 INFO @ Fri, 10 Dec 2021 21:24:49: 28000000 INFO @ Fri, 10 Dec 2021 21:24:50: 20000000 INFO @ Fri, 10 Dec 2021 21:24:53: 29000000 INFO @ Fri, 10 Dec 2021 21:24:56: 29000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 21:24:57: 21000000 INFO @ Fri, 10 Dec 2021 21:25:00: 30000000 INFO @ Fri, 10 Dec 2021 21:25:02: 30000000 INFO @ Fri, 10 Dec 2021 21:25:04: 22000000 INFO @ Fri, 10 Dec 2021 21:25:08: 31000000 INFO @ Fri, 10 Dec 2021 21:25:08: 31000000 INFO @ Fri, 10 Dec 2021 21:25:12: 23000000 INFO @ Fri, 10 Dec 2021 21:25:15: 32000000 INFO @ Fri, 10 Dec 2021 21:25:16: 32000000 INFO @ Fri, 10 Dec 2021 21:25:19: 24000000 INFO @ Fri, 10 Dec 2021 21:25:23: 33000000 INFO @ Fri, 10 Dec 2021 21:25:23: 33000000 INFO @ Fri, 10 Dec 2021 21:25:27: 25000000 INFO @ Fri, 10 Dec 2021 21:25:30: 34000000 INFO @ Fri, 10 Dec 2021 21:25:31: 34000000 INFO @ Fri, 10 Dec 2021 21:25:34: 26000000 INFO @ Fri, 10 Dec 2021 21:25:38: 35000000 INFO @ Fri, 10 Dec 2021 21:25:38: 35000000 INFO @ Fri, 10 Dec 2021 21:25:41: 27000000 INFO @ Fri, 10 Dec 2021 21:25:46: 36000000 INFO @ Fri, 10 Dec 2021 21:25:46: 36000000 INFO @ Fri, 10 Dec 2021 21:25:49: 28000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 21:25:54: 37000000 INFO @ Fri, 10 Dec 2021 21:25:54: 37000000 INFO @ Fri, 10 Dec 2021 21:25:56: 29000000 INFO @ Fri, 10 Dec 2021 21:25:58: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 21:25:58: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 21:25:58: #1 total tags in treatment: 15449613 INFO @ Fri, 10 Dec 2021 21:25:58: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 21:25:58: #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 21:25:58: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 21:25:58: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 21:25:58: #1 total tags in treatment: 15449613 INFO @ Fri, 10 Dec 2021 21:25:58: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 21:25:58: #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 21:25:58: #1 tags after filtering in treatment: 13332703 INFO @ Fri, 10 Dec 2021 21:25:58: #1 Redundant rate of treatment: 0.14 INFO @ Fri, 10 Dec 2021 21:25:58: #1 finished! INFO @ Fri, 10 Dec 2021 21:25:58: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 21:25:58: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 21:25:58: #1 tags after filtering in treatment: 13332703 INFO @ Fri, 10 Dec 2021 21:25:58: #1 Redundant rate of treatment: 0.14 INFO @ Fri, 10 Dec 2021 21:25:58: #1 finished! INFO @ Fri, 10 Dec 2021 21:25:58: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 21:25:58: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 21:25:59: #2 number of paired peaks: 3064 INFO @ Fri, 10 Dec 2021 21:25:59: start model_add_line... INFO @ Fri, 10 Dec 2021 21:26:00: start X-correlation... INFO @ Fri, 10 Dec 2021 21:26:00: end of X-cor INFO @ Fri, 10 Dec 2021 21:26:00: #2 finished! INFO @ Fri, 10 Dec 2021 21:26:00: #2 predicted fragment length is 187 bps INFO @ Fri, 10 Dec 2021 21:26:00: #2 alternative fragment length(s) may be 187 bps INFO @ Fri, 10 Dec 2021 21:26:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.05_model.r INFO @ Fri, 10 Dec 2021 21:26:00: #2 number of paired peaks: 3064 INFO @ Fri, 10 Dec 2021 21:26:00: start model_add_line... INFO @ Fri, 10 Dec 2021 21:26:00: #3 Call peaks... INFO @ Fri, 10 Dec 2021 21:26:00: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 21:26:00: start X-correlation... INFO @ Fri, 10 Dec 2021 21:26:00: end of X-cor INFO @ Fri, 10 Dec 2021 21:26:00: #2 finished! INFO @ Fri, 10 Dec 2021 21:26:00: #2 predicted fragment length is 187 bps INFO @ Fri, 10 Dec 2021 21:26:00: #2 alternative fragment length(s) may be 187 bps INFO @ Fri, 10 Dec 2021 21:26:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.10_model.r INFO @ Fri, 10 Dec 2021 21:26:00: #3 Call peaks... INFO @ Fri, 10 Dec 2021 21:26:00: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 21:26:03: 30000000 INFO @ Fri, 10 Dec 2021 21:26:10: 31000000 INFO @ Fri, 10 Dec 2021 21:26:17: 32000000 INFO @ Fri, 10 Dec 2021 21:26:23: 33000000 INFO @ Fri, 10 Dec 2021 21:26:29: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 21:26:30: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 21:26:30: 34000000 INFO @ Fri, 10 Dec 2021 21:26:37: 35000000 INFO @ Fri, 10 Dec 2021 21:26:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.05_peaks.xls INFO @ Fri, 10 Dec 2021 21:26:43: 36000000 INFO @ Fri, 10 Dec 2021 21:26:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 21:26:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.05_summits.bed INFO @ Fri, 10 Dec 2021 21:26:44: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (13547 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 21:26:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.10_peaks.xls INFO @ Fri, 10 Dec 2021 21:26:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 21:26:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.10_summits.bed INFO @ Fri, 10 Dec 2021 21:26:44: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (10227 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 21:26:50: 37000000 INFO @ Fri, 10 Dec 2021 21:26:53: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 21:26:53: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 21:26:53: #1 total tags in treatment: 15449613 INFO @ Fri, 10 Dec 2021 21:26:53: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 21:26:53: #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 21:26:54: #1 tags after filtering in treatment: 13332703 INFO @ Fri, 10 Dec 2021 21:26:54: #1 Redundant rate of treatment: 0.14 INFO @ Fri, 10 Dec 2021 21:26:54: #1 finished! INFO @ Fri, 10 Dec 2021 21:26:54: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 21:26:54: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 21:26:55: #2 number of paired peaks: 3064 INFO @ Fri, 10 Dec 2021 21:26:55: start model_add_line... INFO @ Fri, 10 Dec 2021 21:26:55: start X-correlation... INFO @ Fri, 10 Dec 2021 21:26:55: end of X-cor INFO @ Fri, 10 Dec 2021 21:26:55: #2 finished! INFO @ Fri, 10 Dec 2021 21:26:55: #2 predicted fragment length is 187 bps INFO @ Fri, 10 Dec 2021 21:26:55: #2 alternative fragment length(s) may be 187 bps INFO @ Fri, 10 Dec 2021 21:26:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.20_model.r INFO @ Fri, 10 Dec 2021 21:26:55: #3 Call peaks... INFO @ Fri, 10 Dec 2021 21:26:55: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 21:27:24: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 21:27:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.20_peaks.xls INFO @ Fri, 10 Dec 2021 21:27:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 21:27:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978860/ERX3978860.20_summits.bed INFO @ Fri, 10 Dec 2021 21:27:38: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (6840 records, 4 fields): 8 millis CompletedMACS2peakCalling