Job ID = 12265455 SRX = SRX7192191 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 9714140 spots for SRR10503235/SRR10503235.sra Written 9714140 spots for SRR10503235/SRR10503235.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265632 ("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: 00:17:16 9714140 reads; of these: 9714140 (100.00%) were paired; of these: 3331099 (34.29%) aligned concordantly 0 times 5761916 (59.31%) aligned concordantly exactly 1 time 621125 (6.39%) aligned concordantly >1 times ---- 3331099 pairs aligned concordantly 0 times; of these: 834366 (25.05%) aligned discordantly 1 time ---- 2496733 pairs aligned 0 times concordantly or discordantly; of these: 4993466 mates make up the pairs; of these: 3435664 (68.80%) aligned 0 times 1278413 (25.60%) aligned exactly 1 time 279389 (5.60%) aligned >1 times 82.32% overall alignment rate Time searching: 00:17:16 Overall time: 00:17:16 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_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] 1005226 / 6917443 = 0.1453 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 07:34:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.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, 03 Apr 2021 07:34:39: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:34:39: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:34:48: 1000000 INFO @ Sat, 03 Apr 2021 07:34:58: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 07:35:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.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, 03 Apr 2021 07:35:08: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:35:08: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:35:08: 3000000 INFO @ Sat, 03 Apr 2021 07:35:18: 1000000 INFO @ Sat, 03 Apr 2021 07:35:18: 4000000 INFO @ Sat, 03 Apr 2021 07:35:29: 2000000 INFO @ Sat, 03 Apr 2021 07:35:29: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 07:35:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.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, 03 Apr 2021 07:35:38: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:35:38: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:35:39: 6000000 INFO @ Sat, 03 Apr 2021 07:35:39: 3000000 INFO @ Sat, 03 Apr 2021 07:35:46: 1000000 INFO @ Sat, 03 Apr 2021 07:35:50: 7000000 INFO @ Sat, 03 Apr 2021 07:35:50: 4000000 INFO @ Sat, 03 Apr 2021 07:35:53: 2000000 INFO @ Sat, 03 Apr 2021 07:36:01: 8000000 INFO @ Sat, 03 Apr 2021 07:36:01: 5000000 INFO @ Sat, 03 Apr 2021 07:36:02: 3000000 INFO @ Sat, 03 Apr 2021 07:36:10: 4000000 INFO @ Sat, 03 Apr 2021 07:36:12: 6000000 INFO @ Sat, 03 Apr 2021 07:36:12: 9000000 INFO @ Sat, 03 Apr 2021 07:36:18: 5000000 INFO @ Sat, 03 Apr 2021 07:36:22: 7000000 INFO @ Sat, 03 Apr 2021 07:36:22: 10000000 INFO @ Sat, 03 Apr 2021 07:36:26: 6000000 INFO @ Sat, 03 Apr 2021 07:36:33: 8000000 INFO @ Sat, 03 Apr 2021 07:36:33: 11000000 INFO @ Sat, 03 Apr 2021 07:36:34: 7000000 INFO @ Sat, 03 Apr 2021 07:36:41: 8000000 INFO @ Sat, 03 Apr 2021 07:36:43: 9000000 INFO @ Sat, 03 Apr 2021 07:36:43: 12000000 INFO @ Sat, 03 Apr 2021 07:36:50: 9000000 INFO @ Sat, 03 Apr 2021 07:36:53: 10000000 INFO @ Sat, 03 Apr 2021 07:36:54: 13000000 INFO @ Sat, 03 Apr 2021 07:36:59: 10000000 INFO @ Sat, 03 Apr 2021 07:37:04: #1 tag size is determined as 101 bps INFO @ Sat, 03 Apr 2021 07:37:04: #1 tag size = 101 INFO @ Sat, 03 Apr 2021 07:37:04: #1 total tags in treatment: 5415762 INFO @ Sat, 03 Apr 2021 07:37:04: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:37:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 07:37:05: #1 tags after filtering in treatment: 4097952 INFO @ Sat, 03 Apr 2021 07:37:05: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 03 Apr 2021 07:37:05: #1 finished! INFO @ Sat, 03 Apr 2021 07:37:05: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:37:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:37:05: #2 number of paired peaks: 5402 INFO @ Sat, 03 Apr 2021 07:37:05: start model_add_line... INFO @ Sat, 03 Apr 2021 07:37:05: start X-correlation... INFO @ Sat, 03 Apr 2021 07:37:05: 11000000 INFO @ Sat, 03 Apr 2021 07:37:05: end of X-cor INFO @ Sat, 03 Apr 2021 07:37:05: #2 finished! INFO @ Sat, 03 Apr 2021 07:37:05: #2 predicted fragment length is 210 bps INFO @ Sat, 03 Apr 2021 07:37:05: #2 alternative fragment length(s) may be 210 bps INFO @ Sat, 03 Apr 2021 07:37:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.05_model.r INFO @ Sat, 03 Apr 2021 07:37:05: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:37:05: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:37:07: 11000000 INFO @ Sat, 03 Apr 2021 07:37:14: 12000000 INFO @ Sat, 03 Apr 2021 07:37:15: 12000000 INFO @ Sat, 03 Apr 2021 07:37:16: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:37:22: 13000000 INFO @ Sat, 03 Apr 2021 07:37:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.05_peaks.xls INFO @ Sat, 03 Apr 2021 07:37:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:37:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.05_summits.bed INFO @ Sat, 03 Apr 2021 07:37:23: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (8958 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:37:24: 13000000 INFO @ Sat, 03 Apr 2021 07:37:29: #1 tag size is determined as 101 bps INFO @ Sat, 03 Apr 2021 07:37:29: #1 tag size = 101 INFO @ Sat, 03 Apr 2021 07:37:29: #1 total tags in treatment: 5415762 INFO @ Sat, 03 Apr 2021 07:37:29: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:37:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 07:37:29: #1 tags after filtering in treatment: 4097952 INFO @ Sat, 03 Apr 2021 07:37:29: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 03 Apr 2021 07:37:29: #1 finished! INFO @ Sat, 03 Apr 2021 07:37:29: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:37:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:37:29: #2 number of paired peaks: 5402 INFO @ Sat, 03 Apr 2021 07:37:29: start model_add_line... INFO @ Sat, 03 Apr 2021 07:37:29: start X-correlation... INFO @ Sat, 03 Apr 2021 07:37:29: end of X-cor INFO @ Sat, 03 Apr 2021 07:37:29: #2 finished! INFO @ Sat, 03 Apr 2021 07:37:29: #2 predicted fragment length is 210 bps INFO @ Sat, 03 Apr 2021 07:37:29: #2 alternative fragment length(s) may be 210 bps INFO @ Sat, 03 Apr 2021 07:37:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.20_model.r INFO @ Sat, 03 Apr 2021 07:37:29: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:37:29: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 07:37:33: #1 tag size is determined as 101 bps INFO @ Sat, 03 Apr 2021 07:37:33: #1 tag size = 101 INFO @ Sat, 03 Apr 2021 07:37:33: #1 total tags in treatment: 5415762 INFO @ Sat, 03 Apr 2021 07:37:33: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:37:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 07:37:34: #1 tags after filtering in treatment: 4097952 INFO @ Sat, 03 Apr 2021 07:37:34: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 03 Apr 2021 07:37:34: #1 finished! INFO @ Sat, 03 Apr 2021 07:37:34: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:37:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:37:34: #2 number of paired peaks: 5402 INFO @ Sat, 03 Apr 2021 07:37:34: start model_add_line... INFO @ Sat, 03 Apr 2021 07:37:34: start X-correlation... INFO @ Sat, 03 Apr 2021 07:37:34: end of X-cor INFO @ Sat, 03 Apr 2021 07:37:34: #2 finished! INFO @ Sat, 03 Apr 2021 07:37:34: #2 predicted fragment length is 210 bps INFO @ Sat, 03 Apr 2021 07:37:34: #2 alternative fragment length(s) may be 210 bps INFO @ Sat, 03 Apr 2021 07:37:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.10_model.r INFO @ Sat, 03 Apr 2021 07:37:34: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:37:34: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:37:39: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:37:45: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.20_peaks.xls INFO @ Sat, 03 Apr 2021 07:37:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:37:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.20_summits.bed INFO @ Sat, 03 Apr 2021 07:37:45: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:37:45: Done! pass1 - making usageList (13 chroms): 14 millis pass2 - checking and writing primary data (2451 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:37:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.10_peaks.xls INFO @ Sat, 03 Apr 2021 07:37:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:37:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7192191/SRX7192191.10_summits.bed INFO @ Sat, 03 Apr 2021 07:37:51: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (5705 records, 4 fields): 36 millis CompletedMACS2peakCalling BigWig に変換しました。