Job ID = 16439314 SRX = SRX15206492 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2022-08-02T05:52:05 prefetch.2.10.7: 1) Downloading 'SRR19139305'... 2022-08-02T05:52:05 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T05:52:21 prefetch.2.10.7: HTTPS download succeed 2022-08-02T05:52:21 prefetch.2.10.7: 'SRR19139305' is valid 2022-08-02T05:52:21 prefetch.2.10.7: 1) 'SRR19139305' was downloaded successfully 2022-08-02T05:52:21 prefetch.2.10.7: 'SRR19139305' has 0 unresolved dependencies Read 6873517 spots for SRR19139305/SRR19139305.sra Written 6873517 spots for SRR19139305/SRR19139305.sra 2022-08-02T05:52:56 prefetch.2.10.7: 1) Downloading 'SRR19139306'... 2022-08-02T05:52:56 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T05:53:01 prefetch.2.10.7: HTTPS download succeed 2022-08-02T05:53:01 prefetch.2.10.7: 'SRR19139306' is valid 2022-08-02T05:53:01 prefetch.2.10.7: 1) 'SRR19139306' was downloaded successfully 2022-08-02T05:53:01 prefetch.2.10.7: 'SRR19139306' has 0 unresolved dependencies Read 1665259 spots for SRR19139306/SRR19139306.sra Written 1665259 spots for SRR19139306/SRR19139306.sra fastq に変換しました。 bowtie でマッピング中... Your job 16439395 ("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: 00:07:50 8538776 reads; of these: 8538776 (100.00%) were unpaired; of these: 212908 (2.49%) aligned 0 times 2969620 (34.78%) aligned exactly 1 time 5356248 (62.73%) aligned >1 times 97.51% overall alignment rate Time searching: 00:07:51 Overall time: 00:07:51 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] 1759954 / 8325868 = 0.2114 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 15:04:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.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 @ Tue, 02 Aug 2022 15:04:38: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:04:38: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:04:51: 1000000 INFO @ Tue, 02 Aug 2022 15:05:03: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 15:05:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.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 @ Tue, 02 Aug 2022 15:05:08: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:05:08: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:05:15: 3000000 INFO @ Tue, 02 Aug 2022 15:05:21: 1000000 INFO @ Tue, 02 Aug 2022 15:05:27: 4000000 INFO @ Tue, 02 Aug 2022 15:05:33: 2000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 15:05:39: 5000000 INFO @ Tue, 02 Aug 2022 15:05:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.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 @ Tue, 02 Aug 2022 15:05:40: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:05:40: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:05:44: 3000000 INFO @ Tue, 02 Aug 2022 15:05:52: 6000000 INFO @ Tue, 02 Aug 2022 15:05:56: 1000000 INFO @ Tue, 02 Aug 2022 15:05:56: 4000000 INFO @ Tue, 02 Aug 2022 15:05:58: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 15:05:58: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 15:05:58: #1 total tags in treatment: 6565914 INFO @ Tue, 02 Aug 2022 15:05:58: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:05:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 15:05:58: #1 tags after filtering in treatment: 6565914 INFO @ Tue, 02 Aug 2022 15:05:58: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 15:05:58: #1 finished! INFO @ Tue, 02 Aug 2022 15:05:58: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:05:58: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:06:00: #2 number of paired peaks: 8447 INFO @ Tue, 02 Aug 2022 15:06:00: start model_add_line... INFO @ Tue, 02 Aug 2022 15:06:00: start X-correlation... INFO @ Tue, 02 Aug 2022 15:06:00: end of X-cor INFO @ Tue, 02 Aug 2022 15:06:00: #2 finished! INFO @ Tue, 02 Aug 2022 15:06:00: #2 predicted fragment length is 272 bps INFO @ Tue, 02 Aug 2022 15:06:00: #2 alternative fragment length(s) may be 272 bps INFO @ Tue, 02 Aug 2022 15:06:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.05_model.r INFO @ Tue, 02 Aug 2022 15:06:00: #3 Call peaks... INFO @ Tue, 02 Aug 2022 15:06:00: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 15:06:09: 5000000 INFO @ Tue, 02 Aug 2022 15:06:12: 2000000 INFO @ Tue, 02 Aug 2022 15:06:21: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 15:06:28: 3000000 INFO @ Tue, 02 Aug 2022 15:06:28: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 15:06:28: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 15:06:28: #1 total tags in treatment: 6565914 INFO @ Tue, 02 Aug 2022 15:06:28: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:06:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 15:06:28: #1 tags after filtering in treatment: 6565914 INFO @ Tue, 02 Aug 2022 15:06:28: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 15:06:28: #1 finished! INFO @ Tue, 02 Aug 2022 15:06:28: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:06:28: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:06:30: #2 number of paired peaks: 8447 INFO @ Tue, 02 Aug 2022 15:06:30: start model_add_line... INFO @ Tue, 02 Aug 2022 15:06:30: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 15:06:30: start X-correlation... INFO @ Tue, 02 Aug 2022 15:06:30: end of X-cor INFO @ Tue, 02 Aug 2022 15:06:30: #2 finished! INFO @ Tue, 02 Aug 2022 15:06:30: #2 predicted fragment length is 272 bps INFO @ Tue, 02 Aug 2022 15:06:30: #2 alternative fragment length(s) may be 272 bps INFO @ Tue, 02 Aug 2022 15:06:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.10_model.r INFO @ Tue, 02 Aug 2022 15:06:30: #3 Call peaks... INFO @ Tue, 02 Aug 2022 15:06:30: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 15:06:43: 4000000 INFO @ Tue, 02 Aug 2022 15:06:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.05_peaks.xls INFO @ Tue, 02 Aug 2022 15:06:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 15:06:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.05_summits.bed INFO @ Tue, 02 Aug 2022 15:06:44: Done! pass1 - making usageList (14 chroms): 4 millis pass2 - checking and writing primary data (13089 records, 4 fields): 31 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 15:06:59: 5000000 INFO @ Tue, 02 Aug 2022 15:07:00: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 15:07:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.10_peaks.xls INFO @ Tue, 02 Aug 2022 15:07:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 15:07:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.10_summits.bed INFO @ Tue, 02 Aug 2022 15:07:14: Done! pass1 - making usageList (14 chroms): 3 millis pass2 - checking and writing primary data (10531 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 15:07:15: 6000000 INFO @ Tue, 02 Aug 2022 15:07:23: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 15:07:23: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 15:07:23: #1 total tags in treatment: 6565914 INFO @ Tue, 02 Aug 2022 15:07:23: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:07:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 15:07:23: #1 tags after filtering in treatment: 6565914 INFO @ Tue, 02 Aug 2022 15:07:23: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 15:07:23: #1 finished! INFO @ Tue, 02 Aug 2022 15:07:23: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:07:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:07:25: #2 number of paired peaks: 8447 INFO @ Tue, 02 Aug 2022 15:07:25: start model_add_line... INFO @ Tue, 02 Aug 2022 15:07:25: start X-correlation... INFO @ Tue, 02 Aug 2022 15:07:25: end of X-cor INFO @ Tue, 02 Aug 2022 15:07:25: #2 finished! INFO @ Tue, 02 Aug 2022 15:07:25: #2 predicted fragment length is 272 bps INFO @ Tue, 02 Aug 2022 15:07:25: #2 alternative fragment length(s) may be 272 bps INFO @ Tue, 02 Aug 2022 15:07:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.20_model.r INFO @ Tue, 02 Aug 2022 15:07:25: #3 Call peaks... INFO @ Tue, 02 Aug 2022 15:07:25: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 15:07:53: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 15:08:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.20_peaks.xls INFO @ Tue, 02 Aug 2022 15:08:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 15:08:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX15206492/SRX15206492.20_summits.bed INFO @ Tue, 02 Aug 2022 15:08:07: Done! pass1 - making usageList (14 chroms): 3 millis pass2 - checking and writing primary data (7038 records, 4 fields): 36 millis CompletedMACS2peakCalling