Job ID = 14167022 SRX = SRX8574259 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 34578244 spots for SRR12045580/SRR12045580.sra Written 34578244 spots for SRR12045580/SRR12045580.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167381 ("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: 00:06:18 34578244 reads; of these: 34578244 (100.00%) were unpaired; of these: 24146136 (69.83%) aligned 0 times 5461957 (15.80%) aligned exactly 1 time 4970151 (14.37%) aligned >1 times 30.17% overall alignment rate Time searching: 00:06:18 Overall time: 00:06:18 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_rmdupse_core] 4629085 / 10432108 = 0.4437 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 09:02:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.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 09:02:14: #1 read tag files... INFO @ Fri, 10 Dec 2021 09:02:14: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 09:02:21: 1000000 INFO @ Fri, 10 Dec 2021 09:02:28: 2000000 INFO @ Fri, 10 Dec 2021 09:02:35: 3000000 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 09:02:42: 4000000 INFO @ Fri, 10 Dec 2021 09:02:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.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 09:02:43: #1 read tag files... INFO @ Fri, 10 Dec 2021 09:02:43: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 09:02:50: 5000000 INFO @ Fri, 10 Dec 2021 09:02:51: 1000000 INFO @ Fri, 10 Dec 2021 09:02:56: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 09:02:56: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 09:02:56: #1 total tags in treatment: 5803023 INFO @ Fri, 10 Dec 2021 09:02:56: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 09:02:56: #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 09:02:56: #1 tags after filtering in treatment: 5803023 INFO @ Fri, 10 Dec 2021 09:02:56: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 09:02:56: #1 finished! INFO @ Fri, 10 Dec 2021 09:02:56: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 09:02:56: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 09:02:57: #2 number of paired peaks: 2541 INFO @ Fri, 10 Dec 2021 09:02:57: start model_add_line... INFO @ Fri, 10 Dec 2021 09:02:57: start X-correlation... INFO @ Fri, 10 Dec 2021 09:02:57: end of X-cor INFO @ Fri, 10 Dec 2021 09:02:57: #2 finished! INFO @ Fri, 10 Dec 2021 09:02:57: #2 predicted fragment length is 143 bps INFO @ Fri, 10 Dec 2021 09:02:57: #2 alternative fragment length(s) may be 143 bps INFO @ Fri, 10 Dec 2021 09:02:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.05_model.r INFO @ Fri, 10 Dec 2021 09:02:57: #3 Call peaks... INFO @ Fri, 10 Dec 2021 09:02:57: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 09:02:58: 2000000 INFO @ Fri, 10 Dec 2021 09:03:05: 3000000 INFO @ Fri, 10 Dec 2021 09:03:10: #3 Call peaks for each chromosome... 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 09:03:11: 4000000 INFO @ Fri, 10 Dec 2021 09:03:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.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 09:03:13: #1 read tag files... INFO @ Fri, 10 Dec 2021 09:03:13: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 09:03:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.05_peaks.xls INFO @ Fri, 10 Dec 2021 09:03:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 09:03:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.05_summits.bed INFO @ Fri, 10 Dec 2021 09:03:17: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (4547 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 09:03:19: 5000000 INFO @ Fri, 10 Dec 2021 09:03:21: 1000000 INFO @ Fri, 10 Dec 2021 09:03:24: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 09:03:24: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 09:03:24: #1 total tags in treatment: 5803023 INFO @ Fri, 10 Dec 2021 09:03:24: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 09:03:24: #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 09:03:25: #1 tags after filtering in treatment: 5803023 INFO @ Fri, 10 Dec 2021 09:03:25: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 09:03:25: #1 finished! INFO @ Fri, 10 Dec 2021 09:03:25: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 09:03:25: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 09:03:25: #2 number of paired peaks: 2541 INFO @ Fri, 10 Dec 2021 09:03:25: start model_add_line... INFO @ Fri, 10 Dec 2021 09:03:25: start X-correlation... INFO @ Fri, 10 Dec 2021 09:03:25: end of X-cor INFO @ Fri, 10 Dec 2021 09:03:25: #2 finished! INFO @ Fri, 10 Dec 2021 09:03:25: #2 predicted fragment length is 143 bps INFO @ Fri, 10 Dec 2021 09:03:25: #2 alternative fragment length(s) may be 143 bps INFO @ Fri, 10 Dec 2021 09:03:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.10_model.r INFO @ Fri, 10 Dec 2021 09:03:25: #3 Call peaks... INFO @ Fri, 10 Dec 2021 09:03:25: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 09:03:28: 2000000 INFO @ Fri, 10 Dec 2021 09:03:35: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 09:03:39: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 09:03:42: 4000000 INFO @ Fri, 10 Dec 2021 09:03:45: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.10_peaks.xls INFO @ Fri, 10 Dec 2021 09:03:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 09:03:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.10_summits.bed INFO @ Fri, 10 Dec 2021 09:03:47: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (3393 records, 4 fields): 135 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 09:03:49: 5000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 09:03:54: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 09:03:54: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 09:03:54: #1 total tags in treatment: 5803023 INFO @ Fri, 10 Dec 2021 09:03:54: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 09:03:54: #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 09:03:54: #1 tags after filtering in treatment: 5803023 INFO @ Fri, 10 Dec 2021 09:03:54: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 09:03:54: #1 finished! INFO @ Fri, 10 Dec 2021 09:03:54: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 09:03:54: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 09:03:54: #2 number of paired peaks: 2541 INFO @ Fri, 10 Dec 2021 09:03:54: start model_add_line... INFO @ Fri, 10 Dec 2021 09:03:55: start X-correlation... INFO @ Fri, 10 Dec 2021 09:03:55: end of X-cor INFO @ Fri, 10 Dec 2021 09:03:55: #2 finished! INFO @ Fri, 10 Dec 2021 09:03:55: #2 predicted fragment length is 143 bps INFO @ Fri, 10 Dec 2021 09:03:55: #2 alternative fragment length(s) may be 143 bps INFO @ Fri, 10 Dec 2021 09:03:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.20_model.r INFO @ Fri, 10 Dec 2021 09:03:55: #3 Call peaks... INFO @ Fri, 10 Dec 2021 09:03:55: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 09:04:09: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 09:04:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.20_peaks.xls INFO @ Fri, 10 Dec 2021 09:04:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 09:04:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8574259/SRX8574259.20_summits.bed INFO @ Fri, 10 Dec 2021 09:04:15: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (2442 records, 4 fields): 31 millis CompletedMACS2peakCalling