Job ID = 6626783 SRX = SRX7780038 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-07-13T23:46:07 prefetch.2.10.7: 1) Downloading 'SRR11143793'... 2020-07-13T23:46:07 prefetch.2.10.7: Downloading via HTTPS... 2020-07-13T23:51:45 prefetch.2.10.7: HTTPS download succeed 2020-07-13T23:51:45 prefetch.2.10.7: 'SRR11143793' is valid 2020-07-13T23:51:45 prefetch.2.10.7: 1) 'SRR11143793' was downloaded successfully Read 14528564 spots for SRR11143793/SRR11143793.sra Written 14528564 spots for SRR11143793/SRR11143793.sra fastq に変換しました。 bowtie でマッピング中... Your job 6627058 ("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: 00:04:28 14528564 reads; of these: 14528564 (100.00%) were unpaired; of these: 1615146 (11.12%) aligned 0 times 9596921 (66.06%) aligned exactly 1 time 3316497 (22.83%) aligned >1 times 88.88% overall alignment rate Time searching: 00:04:28 Overall time: 00:04:28 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] 1840348 / 12913418 = 0.1425 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, 14 Jul 2020 09:00:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.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, 14 Jul 2020 09:00:15: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:00:15: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:00:21: 1000000 INFO @ Tue, 14 Jul 2020 09:00:27: 2000000 INFO @ Tue, 14 Jul 2020 09:00:33: 3000000 INFO @ Tue, 14 Jul 2020 09:00:39: 4000000 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, 14 Jul 2020 09:00:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.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, 14 Jul 2020 09:00:45: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:00:45: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:00:45: 5000000 INFO @ Tue, 14 Jul 2020 09:00:52: 1000000 INFO @ Tue, 14 Jul 2020 09:00:52: 6000000 INFO @ Tue, 14 Jul 2020 09:00:58: 2000000 INFO @ Tue, 14 Jul 2020 09:00:58: 7000000 INFO @ Tue, 14 Jul 2020 09:01:04: 3000000 INFO @ Tue, 14 Jul 2020 09:01:04: 8000000 INFO @ Tue, 14 Jul 2020 09:01:10: 4000000 INFO @ Tue, 14 Jul 2020 09:01:10: 9000000 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, 14 Jul 2020 09:01:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.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, 14 Jul 2020 09:01:15: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:01:15: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:01:17: 10000000 INFO @ Tue, 14 Jul 2020 09:01:17: 5000000 INFO @ Tue, 14 Jul 2020 09:01:22: 1000000 INFO @ Tue, 14 Jul 2020 09:01:23: 11000000 INFO @ Tue, 14 Jul 2020 09:01:23: 6000000 INFO @ Tue, 14 Jul 2020 09:01:23: #1 tag size is determined as 50 bps INFO @ Tue, 14 Jul 2020 09:01:23: #1 tag size = 50 INFO @ Tue, 14 Jul 2020 09:01:23: #1 total tags in treatment: 11073070 INFO @ Tue, 14 Jul 2020 09:01:23: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:01:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 09:01:23: #1 tags after filtering in treatment: 11073070 INFO @ Tue, 14 Jul 2020 09:01:23: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 09:01:23: #1 finished! INFO @ Tue, 14 Jul 2020 09:01:23: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:01:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 09:01:24: #2 number of paired peaks: 73 WARNING @ Tue, 14 Jul 2020 09:01:24: Too few paired peaks (73) 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, 14 Jul 2020 09:01:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.05_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/SRX7780038/SRX7780038.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 09:01:28: 2000000 INFO @ Tue, 14 Jul 2020 09:01:30: 7000000 INFO @ Tue, 14 Jul 2020 09:01:34: 3000000 INFO @ Tue, 14 Jul 2020 09:01:36: 8000000 INFO @ Tue, 14 Jul 2020 09:01:40: 4000000 INFO @ Tue, 14 Jul 2020 09:01:42: 9000000 INFO @ Tue, 14 Jul 2020 09:01:47: 5000000 INFO @ Tue, 14 Jul 2020 09:01:48: 10000000 INFO @ Tue, 14 Jul 2020 09:01:53: 6000000 INFO @ Tue, 14 Jul 2020 09:01:55: 11000000 INFO @ Tue, 14 Jul 2020 09:01:55: #1 tag size is determined as 50 bps INFO @ Tue, 14 Jul 2020 09:01:55: #1 tag size = 50 INFO @ Tue, 14 Jul 2020 09:01:55: #1 total tags in treatment: 11073070 INFO @ Tue, 14 Jul 2020 09:01:55: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:01:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 09:01:55: #1 tags after filtering in treatment: 11073070 INFO @ Tue, 14 Jul 2020 09:01:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 09:01:55: #1 finished! INFO @ Tue, 14 Jul 2020 09:01:55: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:01:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 09:01:56: #2 number of paired peaks: 73 WARNING @ Tue, 14 Jul 2020 09:01:56: Too few paired peaks (73) 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, 14 Jul 2020 09:01:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.10_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/SRX7780038/SRX7780038.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 09:01:59: 7000000 INFO @ Tue, 14 Jul 2020 09:02:05: 8000000 INFO @ Tue, 14 Jul 2020 09:02:11: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 09:02:16: 10000000 INFO @ Tue, 14 Jul 2020 09:02:22: 11000000 INFO @ Tue, 14 Jul 2020 09:02:23: #1 tag size is determined as 50 bps INFO @ Tue, 14 Jul 2020 09:02:23: #1 tag size = 50 INFO @ Tue, 14 Jul 2020 09:02:23: #1 total tags in treatment: 11073070 INFO @ Tue, 14 Jul 2020 09:02:23: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:02:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 09:02:23: #1 tags after filtering in treatment: 11073070 INFO @ Tue, 14 Jul 2020 09:02:23: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 09:02:23: #1 finished! INFO @ Tue, 14 Jul 2020 09:02:23: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:02:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 09:02:23: #2 number of paired peaks: 73 WARNING @ Tue, 14 Jul 2020 09:02:23: Too few paired peaks (73) 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, 14 Jul 2020 09:02:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.20_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/SRX7780038/SRX7780038.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7780038/SRX7780038.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。