Job ID = 7118090 SRX = SRX8639576 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T07:10:31 prefetch.2.10.7: 1) Downloading 'SRR12117014'... 2020-07-22T07:10:31 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:12:19 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:12:19 prefetch.2.10.7: 1) 'SRR12117014' was downloaded successfully 2020-07-22T07:12:19 prefetch.2.10.7: 'SRR12117014' has 0 unresolved dependencies Read 23068993 spots for SRR12117014/SRR12117014.sra Written 23068993 spots for SRR12117014/SRR12117014.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: 00:05:32 23068993 reads; of these: 23068993 (100.00%) were paired; of these: 16096022 (69.77%) aligned concordantly 0 times 6219959 (26.96%) aligned concordantly exactly 1 time 753012 (3.26%) aligned concordantly >1 times ---- 16096022 pairs aligned concordantly 0 times; of these: 106069 (0.66%) aligned discordantly 1 time ---- 15989953 pairs aligned 0 times concordantly or discordantly; of these: 31979906 mates make up the pairs; of these: 31871227 (99.66%) aligned 0 times 72872 (0.23%) aligned exactly 1 time 35807 (0.11%) aligned >1 times 30.92% overall alignment rate Time searching: 00:05:32 Overall time: 00:05:32 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 8 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 76035 / 7074106 = 0.0107 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 @ Wed, 22 Jul 2020 16:22:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Jul 2020 16:22:50: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:22:50: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:22:55: 1000000 INFO @ Wed, 22 Jul 2020 16:23:02: 2000000 INFO @ Wed, 22 Jul 2020 16:23:07: 3000000 INFO @ Wed, 22 Jul 2020 16:23:12: 4000000 INFO @ Wed, 22 Jul 2020 16:23:16: 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 @ Wed, 22 Jul 2020 16:23:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Jul 2020 16:23:20: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:23:20: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:23:21: 6000000 INFO @ Wed, 22 Jul 2020 16:23:25: 1000000 INFO @ Wed, 22 Jul 2020 16:23:26: 7000000 INFO @ Wed, 22 Jul 2020 16:23:30: 2000000 INFO @ Wed, 22 Jul 2020 16:23:31: 8000000 INFO @ Wed, 22 Jul 2020 16:23:35: 3000000 INFO @ Wed, 22 Jul 2020 16:23:36: 9000000 INFO @ Wed, 22 Jul 2020 16:23:40: 4000000 INFO @ Wed, 22 Jul 2020 16:23:41: 10000000 INFO @ Wed, 22 Jul 2020 16:23:45: 5000000 INFO @ Wed, 22 Jul 2020 16:23:46: 11000000 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 @ Wed, 22 Jul 2020 16:23:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Jul 2020 16:23:50: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:23:50: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:23:50: 6000000 INFO @ Wed, 22 Jul 2020 16:23:51: 12000000 INFO @ Wed, 22 Jul 2020 16:23:55: 7000000 INFO @ Wed, 22 Jul 2020 16:23:55: 1000000 INFO @ Wed, 22 Jul 2020 16:23:56: 13000000 INFO @ Wed, 22 Jul 2020 16:24:00: 8000000 INFO @ Wed, 22 Jul 2020 16:24:00: 2000000 INFO @ Wed, 22 Jul 2020 16:24:01: 14000000 INFO @ Wed, 22 Jul 2020 16:24:02: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:24:02: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:24:02: #1 total tags in treatment: 6896994 INFO @ Wed, 22 Jul 2020 16:24:02: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:24:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:24:02: #1 tags after filtering in treatment: 5226088 INFO @ Wed, 22 Jul 2020 16:24:02: #1 Redundant rate of treatment: 0.24 INFO @ Wed, 22 Jul 2020 16:24:02: #1 finished! INFO @ Wed, 22 Jul 2020 16:24:02: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:24:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:24:02: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:24:02: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 16:24:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.05_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/sacCer3/SRX8639576/SRX8639576.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:24:05: 9000000 INFO @ Wed, 22 Jul 2020 16:24:05: 3000000 INFO @ Wed, 22 Jul 2020 16:24:10: 10000000 INFO @ Wed, 22 Jul 2020 16:24:10: 4000000 INFO @ Wed, 22 Jul 2020 16:24:15: 11000000 INFO @ Wed, 22 Jul 2020 16:24:15: 5000000 INFO @ Wed, 22 Jul 2020 16:24:20: 12000000 INFO @ Wed, 22 Jul 2020 16:24:20: 6000000 INFO @ Wed, 22 Jul 2020 16:24:25: 13000000 INFO @ Wed, 22 Jul 2020 16:24:25: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:24:30: 14000000 INFO @ Wed, 22 Jul 2020 16:24:30: 8000000 INFO @ Wed, 22 Jul 2020 16:24:31: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:24:31: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:24:31: #1 total tags in treatment: 6896994 INFO @ Wed, 22 Jul 2020 16:24:31: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:24:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:24:31: #1 tags after filtering in treatment: 5226088 INFO @ Wed, 22 Jul 2020 16:24:31: #1 Redundant rate of treatment: 0.24 INFO @ Wed, 22 Jul 2020 16:24:31: #1 finished! INFO @ Wed, 22 Jul 2020 16:24:31: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:24:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:24:31: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:24:31: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 16:24:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.10_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/sacCer3/SRX8639576/SRX8639576.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:24:35: 9000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:24:40: 10000000 INFO @ Wed, 22 Jul 2020 16:24:44: 11000000 INFO @ Wed, 22 Jul 2020 16:24:49: 12000000 INFO @ Wed, 22 Jul 2020 16:24:53: 13000000 INFO @ Wed, 22 Jul 2020 16:24:58: 14000000 INFO @ Wed, 22 Jul 2020 16:24:59: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:24:59: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:24:59: #1 total tags in treatment: 6896994 INFO @ Wed, 22 Jul 2020 16:24:59: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:24:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 16:24:59: #1 tags after filtering in treatment: 5226088 INFO @ Wed, 22 Jul 2020 16:24:59: #1 Redundant rate of treatment: 0.24 INFO @ Wed, 22 Jul 2020 16:24:59: #1 finished! INFO @ Wed, 22 Jul 2020 16:24:59: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:24:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:24:59: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:24:59: Too few paired peaks (0) 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 @ Wed, 22 Jul 2020 16:24:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.20_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/sacCer3/SRX8639576/SRX8639576.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639576/SRX8639576.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling