Job ID = 14168343 SRX = ERX3978857 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 55586728 spots for ERR3975926/ERR3975926.sra Written 55586728 spots for ERR3975926/ERR3975926.sra fastq に変換しました。 bowtie でマッピング中... Your job 14169845 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 02:26:37 55586728 reads; of these: 55586728 (100.00%) were paired; of these: 7341465 (13.21%) aligned concordantly 0 times 39952935 (71.87%) aligned concordantly exactly 1 time 8292328 (14.92%) aligned concordantly >1 times ---- 7341465 pairs aligned concordantly 0 times; of these: 1288390 (17.55%) aligned discordantly 1 time ---- 6053075 pairs aligned 0 times concordantly or discordantly; of these: 12106150 mates make up the pairs; of these: 5724802 (47.29%) aligned 0 times 3338495 (27.58%) aligned exactly 1 time 3042853 (25.13%) aligned >1 times 94.85% overall alignment rate Time searching: 02:26:38 Overall time: 02:26:38 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 44 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] 40133307 / 49268636 = 0.8146 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 20:40:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.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 20:40:31: #1 read tag files... INFO @ Fri, 10 Dec 2021 20:40:31: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 20:40:36: 1000000 INFO @ Fri, 10 Dec 2021 20:40:40: 2000000 INFO @ Fri, 10 Dec 2021 20:40:45: 3000000 INFO @ Fri, 10 Dec 2021 20:40:49: 4000000 INFO @ Fri, 10 Dec 2021 20:40:54: 5000000 INFO @ Fri, 10 Dec 2021 20:40:58: 6000000 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 20:41:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.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 20:41:01: #1 read tag files... INFO @ Fri, 10 Dec 2021 20:41:01: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 20:41:03: 7000000 INFO @ Fri, 10 Dec 2021 20:41:06: 1000000 INFO @ Fri, 10 Dec 2021 20:41:07: 8000000 INFO @ Fri, 10 Dec 2021 20:41:11: 2000000 INFO @ Fri, 10 Dec 2021 20:41:12: 9000000 INFO @ Fri, 10 Dec 2021 20:41:16: 3000000 INFO @ Fri, 10 Dec 2021 20:41:17: 10000000 INFO @ Fri, 10 Dec 2021 20:41:20: 4000000 INFO @ Fri, 10 Dec 2021 20:41:21: 11000000 INFO @ Fri, 10 Dec 2021 20:41:25: 5000000 INFO @ Fri, 10 Dec 2021 20:41:26: 12000000 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 20:41:30: 6000000 INFO @ Fri, 10 Dec 2021 20:41:30: 13000000 INFO @ Fri, 10 Dec 2021 20:41:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.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 20:41:31: #1 read tag files... INFO @ Fri, 10 Dec 2021 20:41:31: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 20:41:34: 7000000 INFO @ Fri, 10 Dec 2021 20:41:35: 14000000 INFO @ Fri, 10 Dec 2021 20:41:36: 1000000 INFO @ Fri, 10 Dec 2021 20:41:39: 8000000 INFO @ Fri, 10 Dec 2021 20:41:40: 15000000 INFO @ Fri, 10 Dec 2021 20:41:41: 2000000 INFO @ Fri, 10 Dec 2021 20:41:44: 9000000 INFO @ Fri, 10 Dec 2021 20:41:44: 16000000 INFO @ Fri, 10 Dec 2021 20:41:46: 3000000 INFO @ Fri, 10 Dec 2021 20:41:48: 10000000 INFO @ Fri, 10 Dec 2021 20:41:49: 17000000 INFO @ Fri, 10 Dec 2021 20:41:50: 4000000 INFO @ Fri, 10 Dec 2021 20:41:53: 11000000 INFO @ Fri, 10 Dec 2021 20:41:54: 18000000 INFO @ Fri, 10 Dec 2021 20:41:55: 5000000 INFO @ Fri, 10 Dec 2021 20:41:57: 12000000 INFO @ Fri, 10 Dec 2021 20:41:59: 19000000 INFO @ Fri, 10 Dec 2021 20:41:59: 6000000 INFO @ Fri, 10 Dec 2021 20:42:02: 13000000 INFO @ Fri, 10 Dec 2021 20:42:04: 20000000 INFO @ Fri, 10 Dec 2021 20:42:04: 7000000 INFO @ Fri, 10 Dec 2021 20:42:07: 14000000 INFO @ Fri, 10 Dec 2021 20:42:08: 21000000 INFO @ Fri, 10 Dec 2021 20:42:09: 8000000 INFO @ Fri, 10 Dec 2021 20:42:11: 15000000 INFO @ Fri, 10 Dec 2021 20:42:13: 22000000 INFO @ Fri, 10 Dec 2021 20:42:13: 9000000 INFO @ Fri, 10 Dec 2021 20:42:16: 16000000 INFO @ Fri, 10 Dec 2021 20:42:18: 23000000 INFO @ Fri, 10 Dec 2021 20:42:19: 10000000 INFO @ Fri, 10 Dec 2021 20:42:21: 17000000 INFO @ Fri, 10 Dec 2021 20:42:23: 24000000 INFO @ Fri, 10 Dec 2021 20:42:24: 11000000 INFO @ Fri, 10 Dec 2021 20:42:26: 18000000 INFO @ Fri, 10 Dec 2021 20:42:27: 25000000 INFO @ Fri, 10 Dec 2021 20:42:28: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 20:42:28: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 20:42:28: #1 total tags in treatment: 8988316 INFO @ Fri, 10 Dec 2021 20:42:28: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 20:42:28: #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 20:42:28: #1 tags after filtering in treatment: 7713653 INFO @ Fri, 10 Dec 2021 20:42:28: #1 Redundant rate of treatment: 0.14 INFO @ Fri, 10 Dec 2021 20:42:28: #1 finished! INFO @ Fri, 10 Dec 2021 20:42:28: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 20:42:28: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 20:42:29: 12000000 INFO @ Fri, 10 Dec 2021 20:42:29: #2 number of paired peaks: 5623 INFO @ Fri, 10 Dec 2021 20:42:29: start model_add_line... INFO @ Fri, 10 Dec 2021 20:42:29: start X-correlation... INFO @ Fri, 10 Dec 2021 20:42:29: end of X-cor INFO @ Fri, 10 Dec 2021 20:42:29: #2 finished! INFO @ Fri, 10 Dec 2021 20:42:29: #2 predicted fragment length is 193 bps INFO @ Fri, 10 Dec 2021 20:42:29: #2 alternative fragment length(s) may be 193 bps INFO @ Fri, 10 Dec 2021 20:42:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.05_model.r INFO @ Fri, 10 Dec 2021 20:42:29: #3 Call peaks... INFO @ Fri, 10 Dec 2021 20:42:29: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 20:42:31: 19000000 INFO @ Fri, 10 Dec 2021 20:42:34: 13000000 INFO @ Fri, 10 Dec 2021 20:42:36: 20000000 INFO @ Fri, 10 Dec 2021 20:42:39: 14000000 INFO @ Fri, 10 Dec 2021 20:42:41: 21000000 INFO @ Fri, 10 Dec 2021 20:42:44: 15000000 INFO @ Fri, 10 Dec 2021 20:42:45: 22000000 INFO @ Fri, 10 Dec 2021 20:42:47: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 20:42:49: 16000000 INFO @ Fri, 10 Dec 2021 20:42:50: 23000000 INFO @ Fri, 10 Dec 2021 20:42:53: 17000000 INFO @ Fri, 10 Dec 2021 20:42:55: 24000000 INFO @ Fri, 10 Dec 2021 20:42:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.05_peaks.xls INFO @ Fri, 10 Dec 2021 20:42:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 20:42:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.05_summits.bed INFO @ Fri, 10 Dec 2021 20:42:57: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (12654 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 20:42:58: 18000000 INFO @ Fri, 10 Dec 2021 20:43:00: 25000000 INFO @ Fri, 10 Dec 2021 20:43:01: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 20:43:01: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 20:43:01: #1 total tags in treatment: 8988316 INFO @ Fri, 10 Dec 2021 20:43:01: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 20:43:01: #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 20:43:01: #1 tags after filtering in treatment: 7713653 INFO @ Fri, 10 Dec 2021 20:43:01: #1 Redundant rate of treatment: 0.14 INFO @ Fri, 10 Dec 2021 20:43:01: #1 finished! INFO @ Fri, 10 Dec 2021 20:43:01: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 20:43:01: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 20:43:02: #2 number of paired peaks: 5623 INFO @ Fri, 10 Dec 2021 20:43:02: start model_add_line... INFO @ Fri, 10 Dec 2021 20:43:02: start X-correlation... INFO @ Fri, 10 Dec 2021 20:43:02: end of X-cor INFO @ Fri, 10 Dec 2021 20:43:02: #2 finished! INFO @ Fri, 10 Dec 2021 20:43:02: #2 predicted fragment length is 193 bps INFO @ Fri, 10 Dec 2021 20:43:02: #2 alternative fragment length(s) may be 193 bps INFO @ Fri, 10 Dec 2021 20:43:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.10_model.r INFO @ Fri, 10 Dec 2021 20:43:02: #3 Call peaks... INFO @ Fri, 10 Dec 2021 20:43:02: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 20:43:03: 19000000 INFO @ Fri, 10 Dec 2021 20:43:08: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 20:43:13: 21000000 INFO @ Fri, 10 Dec 2021 20:43:17: 22000000 INFO @ Fri, 10 Dec 2021 20:43:19: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 20:43:22: 23000000 INFO @ Fri, 10 Dec 2021 20:43:27: 24000000 INFO @ Fri, 10 Dec 2021 20:43:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.10_peaks.xls INFO @ Fri, 10 Dec 2021 20:43:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 20:43:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.10_summits.bed INFO @ Fri, 10 Dec 2021 20:43:28: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (9253 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 20:43:31: 25000000 INFO @ Fri, 10 Dec 2021 20:43:32: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 20:43:32: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 20:43:32: #1 total tags in treatment: 8988316 INFO @ Fri, 10 Dec 2021 20:43:32: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 20:43:32: #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 20:43:32: #1 tags after filtering in treatment: 7713653 INFO @ Fri, 10 Dec 2021 20:43:32: #1 Redundant rate of treatment: 0.14 INFO @ Fri, 10 Dec 2021 20:43:32: #1 finished! INFO @ Fri, 10 Dec 2021 20:43:32: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 20:43:32: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 20:43:33: #2 number of paired peaks: 5623 INFO @ Fri, 10 Dec 2021 20:43:33: start model_add_line... INFO @ Fri, 10 Dec 2021 20:43:33: start X-correlation... INFO @ Fri, 10 Dec 2021 20:43:33: end of X-cor INFO @ Fri, 10 Dec 2021 20:43:33: #2 finished! INFO @ Fri, 10 Dec 2021 20:43:33: #2 predicted fragment length is 193 bps INFO @ Fri, 10 Dec 2021 20:43:33: #2 alternative fragment length(s) may be 193 bps INFO @ Fri, 10 Dec 2021 20:43:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.20_model.r INFO @ Fri, 10 Dec 2021 20:43:33: #3 Call peaks... INFO @ Fri, 10 Dec 2021 20:43:33: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 20:43:50: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 20:43:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.20_peaks.xls INFO @ Fri, 10 Dec 2021 20:43:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 20:43:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978857/ERX3978857.20_summits.bed INFO @ Fri, 10 Dec 2021 20:44:00: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (6111 records, 4 fields): 8 millis CompletedMACS2peakCalling