Job ID = 6527645 SRX = SRX183889 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:23:34 prefetch.2.10.7: 1) Downloading 'SRR557684'... 2020-06-29T13:23:34 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:30:48 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:30:48 prefetch.2.10.7: 1) 'SRR557684' was downloaded successfully Read 35738149 spots for SRR557684/SRR557684.sra Written 35738149 spots for SRR557684/SRR557684.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: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:12:57 35738149 reads; of these: 35738149 (100.00%) were unpaired; of these: 1215696 (3.40%) aligned 0 times 24011837 (67.19%) aligned exactly 1 time 10510616 (29.41%) aligned >1 times 96.60% overall alignment rate Time searching: 00:12:57 Overall time: 00:12:57 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 12 files... [bam_rmdupse_core] 6409539 / 34522453 = 0.1857 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 @ Mon, 29 Jun 2020 23:01:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.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 @ Mon, 29 Jun 2020 23:01:59: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:01:59: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:02:05: 1000000 INFO @ Mon, 29 Jun 2020 23:02:10: 2000000 INFO @ Mon, 29 Jun 2020 23:02:15: 3000000 INFO @ Mon, 29 Jun 2020 23:02:20: 4000000 INFO @ Mon, 29 Jun 2020 23:02:26: 5000000 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 @ Mon, 29 Jun 2020 23:02:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.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 @ Mon, 29 Jun 2020 23:02:29: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:02:29: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:02:31: 6000000 INFO @ Mon, 29 Jun 2020 23:02:35: 1000000 INFO @ Mon, 29 Jun 2020 23:02:37: 7000000 INFO @ Mon, 29 Jun 2020 23:02:40: 2000000 INFO @ Mon, 29 Jun 2020 23:02:42: 8000000 INFO @ Mon, 29 Jun 2020 23:02:46: 3000000 INFO @ Mon, 29 Jun 2020 23:02:48: 9000000 INFO @ Mon, 29 Jun 2020 23:02:51: 4000000 INFO @ Mon, 29 Jun 2020 23:02:53: 10000000 INFO @ Mon, 29 Jun 2020 23:02:57: 5000000 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 @ Mon, 29 Jun 2020 23:02:59: 11000000 INFO @ Mon, 29 Jun 2020 23:02:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.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 @ Mon, 29 Jun 2020 23:02:59: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:02:59: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:03:03: 6000000 INFO @ Mon, 29 Jun 2020 23:03:04: 12000000 INFO @ Mon, 29 Jun 2020 23:03:05: 1000000 INFO @ Mon, 29 Jun 2020 23:03:08: 7000000 INFO @ Mon, 29 Jun 2020 23:03:10: 13000000 INFO @ Mon, 29 Jun 2020 23:03:11: 2000000 INFO @ Mon, 29 Jun 2020 23:03:14: 8000000 INFO @ Mon, 29 Jun 2020 23:03:16: 14000000 INFO @ Mon, 29 Jun 2020 23:03:17: 3000000 INFO @ Mon, 29 Jun 2020 23:03:20: 9000000 INFO @ Mon, 29 Jun 2020 23:03:22: 15000000 INFO @ Mon, 29 Jun 2020 23:03:23: 4000000 INFO @ Mon, 29 Jun 2020 23:03:25: 10000000 INFO @ Mon, 29 Jun 2020 23:03:27: 16000000 INFO @ Mon, 29 Jun 2020 23:03:29: 5000000 INFO @ Mon, 29 Jun 2020 23:03:31: 11000000 INFO @ Mon, 29 Jun 2020 23:03:33: 17000000 INFO @ Mon, 29 Jun 2020 23:03:35: 6000000 INFO @ Mon, 29 Jun 2020 23:03:37: 12000000 INFO @ Mon, 29 Jun 2020 23:03:38: 18000000 INFO @ Mon, 29 Jun 2020 23:03:40: 7000000 INFO @ Mon, 29 Jun 2020 23:03:42: 13000000 INFO @ Mon, 29 Jun 2020 23:03:44: 19000000 INFO @ Mon, 29 Jun 2020 23:03:46: 8000000 INFO @ Mon, 29 Jun 2020 23:03:48: 14000000 INFO @ Mon, 29 Jun 2020 23:03:49: 20000000 INFO @ Mon, 29 Jun 2020 23:03:52: 9000000 INFO @ Mon, 29 Jun 2020 23:03:53: 15000000 INFO @ Mon, 29 Jun 2020 23:03:55: 21000000 INFO @ Mon, 29 Jun 2020 23:03:58: 10000000 INFO @ Mon, 29 Jun 2020 23:03:59: 16000000 INFO @ Mon, 29 Jun 2020 23:04:01: 22000000 INFO @ Mon, 29 Jun 2020 23:04:03: 11000000 INFO @ Mon, 29 Jun 2020 23:04:04: 17000000 INFO @ Mon, 29 Jun 2020 23:04:07: 23000000 INFO @ Mon, 29 Jun 2020 23:04:09: 12000000 INFO @ Mon, 29 Jun 2020 23:04:10: 18000000 INFO @ Mon, 29 Jun 2020 23:04:12: 24000000 INFO @ Mon, 29 Jun 2020 23:04:15: 13000000 INFO @ Mon, 29 Jun 2020 23:04:16: 19000000 INFO @ Mon, 29 Jun 2020 23:04:18: 25000000 INFO @ Mon, 29 Jun 2020 23:04:20: 14000000 INFO @ Mon, 29 Jun 2020 23:04:21: 20000000 INFO @ Mon, 29 Jun 2020 23:04:24: 26000000 INFO @ Mon, 29 Jun 2020 23:04:26: 15000000 INFO @ Mon, 29 Jun 2020 23:04:27: 21000000 INFO @ Mon, 29 Jun 2020 23:04:30: 27000000 INFO @ Mon, 29 Jun 2020 23:04:32: 16000000 INFO @ Mon, 29 Jun 2020 23:04:32: 22000000 INFO @ Mon, 29 Jun 2020 23:04:35: 28000000 INFO @ Mon, 29 Jun 2020 23:04:36: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 23:04:36: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 23:04:36: #1 total tags in treatment: 28112914 INFO @ Mon, 29 Jun 2020 23:04:36: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:04:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:04:37: #1 tags after filtering in treatment: 28112914 INFO @ Mon, 29 Jun 2020 23:04:37: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:04:37: #1 finished! INFO @ Mon, 29 Jun 2020 23:04:37: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:04:37: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:04:38: 17000000 INFO @ Mon, 29 Jun 2020 23:04:38: 23000000 INFO @ Mon, 29 Jun 2020 23:04:38: #2 number of paired peaks: 41 WARNING @ Mon, 29 Jun 2020 23:04:38: Too few paired peaks (41) 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 @ Mon, 29 Jun 2020 23:04:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:04:44: 24000000 INFO @ Mon, 29 Jun 2020 23:04:44: 18000000 INFO @ Mon, 29 Jun 2020 23:04:50: 25000000 INFO @ Mon, 29 Jun 2020 23:04:50: 19000000 INFO @ Mon, 29 Jun 2020 23:04:55: 26000000 INFO @ Mon, 29 Jun 2020 23:04:56: 20000000 INFO @ Mon, 29 Jun 2020 23:05:01: 27000000 INFO @ Mon, 29 Jun 2020 23:05:02: 21000000 INFO @ Mon, 29 Jun 2020 23:05:07: 28000000 INFO @ Mon, 29 Jun 2020 23:05:07: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 23:05:07: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 23:05:07: #1 total tags in treatment: 28112914 INFO @ Mon, 29 Jun 2020 23:05:07: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:05:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:05:08: #1 tags after filtering in treatment: 28112914 INFO @ Mon, 29 Jun 2020 23:05:08: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:05:08: #1 finished! INFO @ Mon, 29 Jun 2020 23:05:08: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:05:08: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:05:08: 22000000 INFO @ Mon, 29 Jun 2020 23:05:10: #2 number of paired peaks: 41 WARNING @ Mon, 29 Jun 2020 23:05:10: Too few paired peaks (41) 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 @ Mon, 29 Jun 2020 23:05:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.10_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/SRX183889/SRX183889.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:05:14: 23000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:05:19: 24000000 INFO @ Mon, 29 Jun 2020 23:05:25: 25000000 INFO @ Mon, 29 Jun 2020 23:05:31: 26000000 INFO @ Mon, 29 Jun 2020 23:05:36: 27000000 INFO @ Mon, 29 Jun 2020 23:05:42: 28000000 INFO @ Mon, 29 Jun 2020 23:05:43: #1 tag size is determined as 40 bps INFO @ Mon, 29 Jun 2020 23:05:43: #1 tag size = 40 INFO @ Mon, 29 Jun 2020 23:05:43: #1 total tags in treatment: 28112914 INFO @ Mon, 29 Jun 2020 23:05:43: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:05:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:05:43: #1 tags after filtering in treatment: 28112914 INFO @ Mon, 29 Jun 2020 23:05:43: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:05:43: #1 finished! INFO @ Mon, 29 Jun 2020 23:05:43: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:05:43: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:05:45: #2 number of paired peaks: 41 WARNING @ Mon, 29 Jun 2020 23:05:45: Too few paired peaks (41) 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 @ Mon, 29 Jun 2020 23:05:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.20_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/SRX183889/SRX183889.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX183889/SRX183889.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。