Job ID = 6528128 SRX = SRX474569 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:42:24 prefetch.2.10.7: 1) Downloading 'SRR1174422'... 2020-06-29T15:42:24 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:43:43 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:43:44 prefetch.2.10.7: 'SRR1174422' is valid 2020-06-29T15:43:44 prefetch.2.10.7: 1) 'SRR1174422' was downloaded successfully Read 12597078 spots for SRR1174422/SRR1174422.sra Written 12597078 spots for SRR1174422/SRR1174422.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: 00:03:40 12597078 reads; of these: 12597078 (100.00%) were unpaired; of these: 1735881 (13.78%) aligned 0 times 8328891 (66.12%) aligned exactly 1 time 2532306 (20.10%) aligned >1 times 86.22% overall alignment rate Time searching: 00:03:40 Overall time: 00:03:40 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] 1799333 / 10861197 = 0.1657 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 00:55:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.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 00:55:24: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:55:24: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:55:31: 1000000 INFO @ Tue, 30 Jun 2020 00:55:38: 2000000 INFO @ Tue, 30 Jun 2020 00:55:46: 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 00:55:53: 4000000 INFO @ Tue, 30 Jun 2020 00:55:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.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 00:55:54: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:55:54: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:56:01: 5000000 INFO @ Tue, 30 Jun 2020 00:56:02: 1000000 INFO @ Tue, 30 Jun 2020 00:56:10: 6000000 INFO @ Tue, 30 Jun 2020 00:56:11: 2000000 INFO @ Tue, 30 Jun 2020 00:56:19: 7000000 INFO @ Tue, 30 Jun 2020 00:56:20: 3000000 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 00:56:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.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 00:56:24: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:56:24: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:56:27: 8000000 INFO @ Tue, 30 Jun 2020 00:56:29: 4000000 INFO @ Tue, 30 Jun 2020 00:56:32: 1000000 INFO @ Tue, 30 Jun 2020 00:56:36: 9000000 INFO @ Tue, 30 Jun 2020 00:56:36: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:56:36: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:56:36: #1 total tags in treatment: 9061864 INFO @ Tue, 30 Jun 2020 00:56:36: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:56:36: #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 00:56:36: #1 tags after filtering in treatment: 9061864 INFO @ Tue, 30 Jun 2020 00:56:36: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:56:36: #1 finished! INFO @ Tue, 30 Jun 2020 00:56:36: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:56:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:56:37: #2 number of paired peaks: 12 WARNING @ Tue, 30 Jun 2020 00:56:37: Too few paired peaks (12) 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 00:56:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.05_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/SRX474569/SRX474569.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:56:37: 5000000 INFO @ Tue, 30 Jun 2020 00:56:41: 2000000 INFO @ Tue, 30 Jun 2020 00:56:46: 6000000 INFO @ Tue, 30 Jun 2020 00:56:50: 3000000 INFO @ Tue, 30 Jun 2020 00:56:55: 7000000 INFO @ Tue, 30 Jun 2020 00:56:58: 4000000 INFO @ Tue, 30 Jun 2020 00:57:03: 8000000 INFO @ Tue, 30 Jun 2020 00:57:06: 5000000 INFO @ Tue, 30 Jun 2020 00:57:12: 9000000 INFO @ Tue, 30 Jun 2020 00:57:12: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:57:12: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:57:12: #1 total tags in treatment: 9061864 INFO @ Tue, 30 Jun 2020 00:57:12: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:57:12: #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 00:57:12: #1 tags after filtering in treatment: 9061864 INFO @ Tue, 30 Jun 2020 00:57:12: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:57:12: #1 finished! INFO @ Tue, 30 Jun 2020 00:57:12: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:57:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:57:13: #2 number of paired peaks: 12 WARNING @ Tue, 30 Jun 2020 00:57:13: Too few paired peaks (12) 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 00:57:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.10_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/SRX474569/SRX474569.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:57:15: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:57:23: 7000000 INFO @ Tue, 30 Jun 2020 00:57:31: 8000000 INFO @ Tue, 30 Jun 2020 00:57:39: 9000000 INFO @ Tue, 30 Jun 2020 00:57:39: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:57:39: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:57:39: #1 total tags in treatment: 9061864 INFO @ Tue, 30 Jun 2020 00:57:39: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:57:39: #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 00:57:39: #1 tags after filtering in treatment: 9061864 INFO @ Tue, 30 Jun 2020 00:57:39: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:57:39: #1 finished! INFO @ Tue, 30 Jun 2020 00:57:39: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:57:39: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:57:40: #2 number of paired peaks: 12 WARNING @ Tue, 30 Jun 2020 00:57:40: Too few paired peaks (12) 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 00:57:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.20_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/SRX474569/SRX474569.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474569/SRX474569.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。