Job ID = 14172469 SRX = SRX7434133 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 9129381 spots for SRR10759899/SRR10759899.sra Written 9129381 spots for SRR10759899/SRR10759899.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172898 ("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: 00:02:24 9129381 reads; of these: 9129381 (100.00%) were unpaired; of these: 592347 (6.49%) aligned 0 times 7295046 (79.91%) aligned exactly 1 time 1241988 (13.60%) aligned >1 times 93.51% overall alignment rate Time searching: 00:02:24 Overall time: 00:02:24 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_rmdupse_core] 4176574 / 8537034 = 0.4892 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 15:37:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.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 15:37:32: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:37:32: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:37:38: 1000000 INFO @ Sat, 11 Dec 2021 15:37:43: 2000000 INFO @ Sat, 11 Dec 2021 15:37:50: 3000000 INFO @ Sat, 11 Dec 2021 15:37:57: 4000000 INFO @ Sat, 11 Dec 2021 15:37:59: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:37:59: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:37:59: #1 total tags in treatment: 4360460 INFO @ Sat, 11 Dec 2021 15:37:59: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:37:59: #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 15:37:59: #1 tags after filtering in treatment: 4360460 INFO @ Sat, 11 Dec 2021 15:37:59: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:37:59: #1 finished! INFO @ Sat, 11 Dec 2021 15:37:59: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:37:59: #2 looking for paired plus/minus strand peaks... 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 15:38:00: #2 number of paired peaks: 6055 INFO @ Sat, 11 Dec 2021 15:38:00: start model_add_line... INFO @ Sat, 11 Dec 2021 15:38:00: start X-correlation... INFO @ Sat, 11 Dec 2021 15:38:00: end of X-cor INFO @ Sat, 11 Dec 2021 15:38:00: #2 finished! INFO @ Sat, 11 Dec 2021 15:38:00: #2 predicted fragment length is 269 bps INFO @ Sat, 11 Dec 2021 15:38:00: #2 alternative fragment length(s) may be 269 bps INFO @ Sat, 11 Dec 2021 15:38:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.05_model.r INFO @ Sat, 11 Dec 2021 15:38:00: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:38:00: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:38:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.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 15:38:02: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:38:02: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:38:09: 1000000 INFO @ Sat, 11 Dec 2021 15:38:14: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:38:16: 2000000 INFO @ Sat, 11 Dec 2021 15:38:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:38:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:38:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.05_summits.bed INFO @ Sat, 11 Dec 2021 15:38:20: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (8141 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:38:23: 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 15:38:30: 4000000 INFO @ Sat, 11 Dec 2021 15:38:33: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:38:33: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:38:33: #1 total tags in treatment: 4360460 INFO @ Sat, 11 Dec 2021 15:38:33: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:38:33: #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 15:38:33: #1 tags after filtering in treatment: 4360460 INFO @ Sat, 11 Dec 2021 15:38:33: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:38:33: #1 finished! INFO @ Sat, 11 Dec 2021 15:38:33: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:38:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:38:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.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 15:38:33: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:38:33: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:38:33: #2 number of paired peaks: 6055 INFO @ Sat, 11 Dec 2021 15:38:33: start model_add_line... INFO @ Sat, 11 Dec 2021 15:38:34: start X-correlation... INFO @ Sat, 11 Dec 2021 15:38:34: end of X-cor INFO @ Sat, 11 Dec 2021 15:38:34: #2 finished! INFO @ Sat, 11 Dec 2021 15:38:34: #2 predicted fragment length is 269 bps INFO @ Sat, 11 Dec 2021 15:38:34: #2 alternative fragment length(s) may be 269 bps INFO @ Sat, 11 Dec 2021 15:38:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.10_model.r INFO @ Sat, 11 Dec 2021 15:38:34: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:38:34: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:38:39: 1000000 INFO @ Sat, 11 Dec 2021 15:38:45: 2000000 INFO @ Sat, 11 Dec 2021 15:38:46: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:38:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:38:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:38:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.10_summits.bed INFO @ Sat, 11 Dec 2021 15:38:52: Done! INFO @ Sat, 11 Dec 2021 15:38:52: 3000000 pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (6504 records, 4 fields): 38 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:38:59: 4000000 INFO @ Sat, 11 Dec 2021 15:39:02: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:39:02: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:39:02: #1 total tags in treatment: 4360460 INFO @ Sat, 11 Dec 2021 15:39:02: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:39:02: #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 15:39:02: #1 tags after filtering in treatment: 4360460 INFO @ Sat, 11 Dec 2021 15:39:02: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:39:02: #1 finished! INFO @ Sat, 11 Dec 2021 15:39:02: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:39:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:39:02: #2 number of paired peaks: 6055 INFO @ Sat, 11 Dec 2021 15:39:02: start model_add_line... INFO @ Sat, 11 Dec 2021 15:39:03: start X-correlation... INFO @ Sat, 11 Dec 2021 15:39:03: end of X-cor INFO @ Sat, 11 Dec 2021 15:39:03: #2 finished! INFO @ Sat, 11 Dec 2021 15:39:03: #2 predicted fragment length is 269 bps INFO @ Sat, 11 Dec 2021 15:39:03: #2 alternative fragment length(s) may be 269 bps INFO @ Sat, 11 Dec 2021 15:39:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.20_model.r INFO @ Sat, 11 Dec 2021 15:39:03: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:39:03: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:39:15: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:39:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:39:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:39:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434133/SRX7434133.20_summits.bed INFO @ Sat, 11 Dec 2021 15:39:22: Done! pass1 - making usageList (14 chroms): 10 millis pass2 - checking and writing primary data (4703 records, 4 fields): 13 millis CompletedMACS2peakCalling