Job ID = 6528322 SRX = SRX5343143 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:11:36 prefetch.2.10.7: 1) Downloading 'SRR8540843'... 2020-06-29T15:11:36 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:17:02 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:17:02 prefetch.2.10.7: 1) 'SRR8540843' was downloaded successfully 2020-06-29T15:17:02 prefetch.2.10.7: 'SRR8540843' has 0 unresolved dependencies Read 39467832 spots for SRR8540843/SRR8540843.sra Written 39467832 spots for SRR8540843/SRR8540843.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:15:28 39467832 reads; of these: 39467832 (100.00%) were unpaired; of these: 3365936 (8.53%) aligned 0 times 25751913 (65.25%) aligned exactly 1 time 10349983 (26.22%) aligned >1 times 91.47% overall alignment rate Time searching: 00:15:29 Overall time: 00:15:29 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 16 files... [bam_rmdupse_core] 13709787 / 36101896 = 0.3798 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 01:04:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.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, 30 Jun 2020 01:04:21: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:04:21: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:04:29: 1000000 INFO @ Tue, 30 Jun 2020 01:04:36: 2000000 INFO @ Tue, 30 Jun 2020 01:04:44: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 01:04:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.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, 30 Jun 2020 01:04:51: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:04:51: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:04:52: 4000000 INFO @ Tue, 30 Jun 2020 01:05:00: 1000000 INFO @ Tue, 30 Jun 2020 01:05:01: 5000000 INFO @ Tue, 30 Jun 2020 01:05:09: 2000000 INFO @ Tue, 30 Jun 2020 01:05:09: 6000000 INFO @ Tue, 30 Jun 2020 01:05:17: 3000000 INFO @ Tue, 30 Jun 2020 01:05:18: 7000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 01:05:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.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, 30 Jun 2020 01:05:21: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:05:21: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:05:26: 4000000 INFO @ Tue, 30 Jun 2020 01:05:27: 8000000 INFO @ Tue, 30 Jun 2020 01:05:28: 1000000 INFO @ Tue, 30 Jun 2020 01:05:35: 5000000 INFO @ Tue, 30 Jun 2020 01:05:35: 2000000 INFO @ Tue, 30 Jun 2020 01:05:36: 9000000 INFO @ Tue, 30 Jun 2020 01:05:42: 3000000 INFO @ Tue, 30 Jun 2020 01:05:44: 6000000 INFO @ Tue, 30 Jun 2020 01:05:45: 10000000 INFO @ Tue, 30 Jun 2020 01:05:49: 4000000 INFO @ Tue, 30 Jun 2020 01:05:53: 7000000 INFO @ Tue, 30 Jun 2020 01:05:53: 11000000 INFO @ Tue, 30 Jun 2020 01:05:56: 5000000 INFO @ Tue, 30 Jun 2020 01:06:01: 8000000 INFO @ Tue, 30 Jun 2020 01:06:02: 12000000 INFO @ Tue, 30 Jun 2020 01:06:03: 6000000 INFO @ Tue, 30 Jun 2020 01:06:10: 9000000 INFO @ Tue, 30 Jun 2020 01:06:10: 7000000 INFO @ Tue, 30 Jun 2020 01:06:11: 13000000 INFO @ Tue, 30 Jun 2020 01:06:17: 8000000 INFO @ Tue, 30 Jun 2020 01:06:19: 10000000 INFO @ Tue, 30 Jun 2020 01:06:19: 14000000 INFO @ Tue, 30 Jun 2020 01:06:24: 9000000 INFO @ Tue, 30 Jun 2020 01:06:27: 11000000 INFO @ Tue, 30 Jun 2020 01:06:28: 15000000 INFO @ Tue, 30 Jun 2020 01:06:31: 10000000 INFO @ Tue, 30 Jun 2020 01:06:36: 12000000 INFO @ Tue, 30 Jun 2020 01:06:37: 16000000 INFO @ Tue, 30 Jun 2020 01:06:38: 11000000 INFO @ Tue, 30 Jun 2020 01:06:45: 13000000 INFO @ Tue, 30 Jun 2020 01:06:45: 12000000 INFO @ Tue, 30 Jun 2020 01:06:46: 17000000 INFO @ Tue, 30 Jun 2020 01:06:52: 13000000 INFO @ Tue, 30 Jun 2020 01:06:53: 14000000 INFO @ Tue, 30 Jun 2020 01:06:55: 18000000 INFO @ Tue, 30 Jun 2020 01:06:59: 14000000 INFO @ Tue, 30 Jun 2020 01:07:02: 15000000 INFO @ Tue, 30 Jun 2020 01:07:03: 19000000 INFO @ Tue, 30 Jun 2020 01:07:06: 15000000 INFO @ Tue, 30 Jun 2020 01:07:11: 16000000 INFO @ Tue, 30 Jun 2020 01:07:12: 20000000 INFO @ Tue, 30 Jun 2020 01:07:13: 16000000 INFO @ Tue, 30 Jun 2020 01:07:20: 17000000 INFO @ Tue, 30 Jun 2020 01:07:20: 17000000 INFO @ Tue, 30 Jun 2020 01:07:21: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:07:28: 18000000 INFO @ Tue, 30 Jun 2020 01:07:29: 18000000 INFO @ Tue, 30 Jun 2020 01:07:30: 22000000 INFO @ Tue, 30 Jun 2020 01:07:34: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 01:07:34: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 01:07:34: #1 total tags in treatment: 22392109 INFO @ Tue, 30 Jun 2020 01:07:34: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:07:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:07:34: #1 tags after filtering in treatment: 22392109 INFO @ Tue, 30 Jun 2020 01:07:34: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:07:34: #1 finished! INFO @ Tue, 30 Jun 2020 01:07:34: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:07:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:07:35: 19000000 INFO @ Tue, 30 Jun 2020 01:07:35: #2 number of paired peaks: 79 WARNING @ Tue, 30 Jun 2020 01:07:35: Too few paired peaks (79) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Tue, 30 Jun 2020 01:07:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:07:37: 19000000 INFO @ Tue, 30 Jun 2020 01:07:42: 20000000 INFO @ Tue, 30 Jun 2020 01:07:45: 20000000 INFO @ Tue, 30 Jun 2020 01:07:49: 21000000 INFO @ Tue, 30 Jun 2020 01:07:53: 21000000 INFO @ Tue, 30 Jun 2020 01:07:56: 22000000 INFO @ Tue, 30 Jun 2020 01:07:58: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 01:07:58: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 01:07:58: #1 total tags in treatment: 22392109 INFO @ Tue, 30 Jun 2020 01:07:58: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:07:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:07:59: #1 tags after filtering in treatment: 22392109 INFO @ Tue, 30 Jun 2020 01:07:59: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:07:59: #1 finished! INFO @ Tue, 30 Jun 2020 01:07:59: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:07:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:08:00: 22000000 INFO @ Tue, 30 Jun 2020 01:08:00: #2 number of paired peaks: 79 WARNING @ Tue, 30 Jun 2020 01:08:00: Too few paired peaks (79) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Tue, 30 Jun 2020 01:08:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:08:03: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 01:08:03: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 01:08:03: #1 total tags in treatment: 22392109 INFO @ Tue, 30 Jun 2020 01:08:03: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:08:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:08:04: #1 tags after filtering in treatment: 22392109 INFO @ Tue, 30 Jun 2020 01:08:04: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:08:04: #1 finished! INFO @ Tue, 30 Jun 2020 01:08:04: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:08:04: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:08:05: #2 number of paired peaks: 79 WARNING @ Tue, 30 Jun 2020 01:08:05: Too few paired peaks (79) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Tue, 30 Jun 2020 01:08:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343143/SRX5343143.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。