Job ID = 12265278 SRX = SRX5010737 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 19484964 spots for SRR8191162/SRR8191162.sra Written 19484964 spots for SRR8191162/SRR8191162.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265413 ("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: 00:06:06 19484964 reads; of these: 19484964 (100.00%) were unpaired; of these: 716893 (3.68%) aligned 0 times 10849013 (55.68%) aligned exactly 1 time 7919058 (40.64%) aligned >1 times 96.32% overall alignment rate Time searching: 00:06:06 Overall time: 00:06:06 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] 10664309 / 18768071 = 0.5682 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 06:34:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.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 06:34:19: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:34:19: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:34:27: 1000000 INFO @ Sat, 03 Apr 2021 06:34:35: 2000000 INFO @ Sat, 03 Apr 2021 06:34:42: 3000000 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 06:34:49: 4000000 INFO @ Sat, 03 Apr 2021 06:34:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.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 06:34:49: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:34:49: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:34:57: 5000000 INFO @ Sat, 03 Apr 2021 06:34:58: 1000000 INFO @ Sat, 03 Apr 2021 06:35:05: 6000000 INFO @ Sat, 03 Apr 2021 06:35:07: 2000000 INFO @ Sat, 03 Apr 2021 06:35:13: 7000000 INFO @ Sat, 03 Apr 2021 06:35:15: 3000000 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 06:35:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.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 06:35:20: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:35:20: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:35:21: 8000000 INFO @ Sat, 03 Apr 2021 06:35:22: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:35:22: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:35:22: #1 total tags in treatment: 8103762 INFO @ Sat, 03 Apr 2021 06:35:22: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:35:22: #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 06:35:22: #1 tags after filtering in treatment: 8103762 INFO @ Sat, 03 Apr 2021 06:35:22: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:35:22: #1 finished! INFO @ Sat, 03 Apr 2021 06:35:22: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:35:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:35:23: #2 number of paired peaks: 2792 INFO @ Sat, 03 Apr 2021 06:35:23: start model_add_line... INFO @ Sat, 03 Apr 2021 06:35:23: start X-correlation... INFO @ Sat, 03 Apr 2021 06:35:23: end of X-cor INFO @ Sat, 03 Apr 2021 06:35:23: #2 finished! INFO @ Sat, 03 Apr 2021 06:35:23: #2 predicted fragment length is 79 bps INFO @ Sat, 03 Apr 2021 06:35:23: #2 alternative fragment length(s) may be 79 bps INFO @ Sat, 03 Apr 2021 06:35:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.05_model.r WARNING @ Sat, 03 Apr 2021 06:35:24: #2 Since the d (79) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:35:24: #2 You may need to consider one of the other alternative d(s): 79 WARNING @ Sat, 03 Apr 2021 06:35:24: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:35:24: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:35:24: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:35:24: 4000000 INFO @ Sat, 03 Apr 2021 06:35:30: 1000000 INFO @ Sat, 03 Apr 2021 06:35:32: 5000000 INFO @ Sat, 03 Apr 2021 06:35:40: 2000000 INFO @ Sat, 03 Apr 2021 06:35:41: 6000000 INFO @ Sat, 03 Apr 2021 06:35:49: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:35:50: 3000000 INFO @ Sat, 03 Apr 2021 06:35:51: 7000000 INFO @ Sat, 03 Apr 2021 06:35:59: 8000000 INFO @ Sat, 03 Apr 2021 06:36:00: 4000000 INFO @ Sat, 03 Apr 2021 06:36:00: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:36:00: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:36:00: #1 total tags in treatment: 8103762 INFO @ Sat, 03 Apr 2021 06:36:00: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:36:00: #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 06:36:00: #1 tags after filtering in treatment: 8103762 INFO @ Sat, 03 Apr 2021 06:36:00: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:36:00: #1 finished! INFO @ Sat, 03 Apr 2021 06:36:00: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:36:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:36:01: #2 number of paired peaks: 2792 INFO @ Sat, 03 Apr 2021 06:36:01: start model_add_line... INFO @ Sat, 03 Apr 2021 06:36:01: start X-correlation... INFO @ Sat, 03 Apr 2021 06:36:01: end of X-cor INFO @ Sat, 03 Apr 2021 06:36:01: #2 finished! INFO @ Sat, 03 Apr 2021 06:36:01: #2 predicted fragment length is 79 bps INFO @ Sat, 03 Apr 2021 06:36:01: #2 alternative fragment length(s) may be 79 bps INFO @ Sat, 03 Apr 2021 06:36:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.10_model.r WARNING @ Sat, 03 Apr 2021 06:36:02: #2 Since the d (79) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:36:02: #2 You may need to consider one of the other alternative d(s): 79 WARNING @ Sat, 03 Apr 2021 06:36:02: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:36:02: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:36:02: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:36:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:36:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:36:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.05_summits.bed INFO @ Sat, 03 Apr 2021 06:36:04: Done! pass1 - making usageList (15 chroms): 6 millis pass2 - checking and writing primary data (11773 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:36:09: 5000000 INFO @ Sat, 03 Apr 2021 06:36:20: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:36:27: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:36:30: 7000000 INFO @ Sat, 03 Apr 2021 06:36:40: 8000000 INFO @ Sat, 03 Apr 2021 06:36:41: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:36:41: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:36:41: #1 total tags in treatment: 8103762 INFO @ Sat, 03 Apr 2021 06:36:41: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:36:41: #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 06:36:41: #1 tags after filtering in treatment: 8103762 INFO @ Sat, 03 Apr 2021 06:36:41: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:36:41: #1 finished! INFO @ Sat, 03 Apr 2021 06:36:41: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:36:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:36:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:36:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:36:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.10_summits.bed INFO @ Sat, 03 Apr 2021 06:36:42: Done! pass1 - making usageList (15 chroms): 5 millis pass2 - checking and writing primary data (7197 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:36:42: #2 number of paired peaks: 2792 INFO @ Sat, 03 Apr 2021 06:36:42: start model_add_line... INFO @ Sat, 03 Apr 2021 06:36:42: start X-correlation... INFO @ Sat, 03 Apr 2021 06:36:43: end of X-cor INFO @ Sat, 03 Apr 2021 06:36:43: #2 finished! INFO @ Sat, 03 Apr 2021 06:36:43: #2 predicted fragment length is 79 bps INFO @ Sat, 03 Apr 2021 06:36:43: #2 alternative fragment length(s) may be 79 bps INFO @ Sat, 03 Apr 2021 06:36:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.20_model.r WARNING @ Sat, 03 Apr 2021 06:36:43: #2 Since the d (79) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:36:43: #2 You may need to consider one of the other alternative d(s): 79 WARNING @ Sat, 03 Apr 2021 06:36:43: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:36:43: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:36:43: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:37:07: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:37:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:37:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:37:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010737/SRX5010737.20_summits.bed INFO @ Sat, 03 Apr 2021 06:37:21: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (3141 records, 4 fields): 22 millis CompletedMACS2peakCalling