Job ID = 7113224 SRX = SRX8357699 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:26:44 prefetch.2.10.7: 1) Downloading 'SRR11806287'... 2020-07-22T05:26:44 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:27:55 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:27:56 prefetch.2.10.7: 'SRR11806287' is valid 2020-07-22T05:27:56 prefetch.2.10.7: 1) 'SRR11806287' was downloaded successfully 2020-07-22T05:27:56 prefetch.2.10.7: 'SRR11806287' has 0 unresolved dependencies Read 11134331 spots for SRR11806287/SRR11806287.sra Written 11134331 spots for SRR11806287/SRR11806287.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: 00:06:59 11134331 reads; of these: 11134331 (100.00%) were paired; of these: 729576 (6.55%) aligned concordantly 0 times 9392953 (84.36%) aligned concordantly exactly 1 time 1011802 (9.09%) aligned concordantly >1 times ---- 729576 pairs aligned concordantly 0 times; of these: 72951 (10.00%) aligned discordantly 1 time ---- 656625 pairs aligned 0 times concordantly or discordantly; of these: 1313250 mates make up the pairs; of these: 1066513 (81.21%) aligned 0 times 158938 (12.10%) aligned exactly 1 time 87799 (6.69%) aligned >1 times 95.21% overall alignment rate Time searching: 00:06:59 Overall time: 00:06:59 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 12 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] 1485287 / 10455019 = 0.1421 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 14:41:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.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 14:41:20: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:41:20: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:41:25: 1000000 INFO @ Wed, 22 Jul 2020 14:41:31: 2000000 INFO @ Wed, 22 Jul 2020 14:41:36: 3000000 INFO @ Wed, 22 Jul 2020 14:41:42: 4000000 INFO @ Wed, 22 Jul 2020 14:41:47: 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 14:41:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.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 14:41:49: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:41:49: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:41:53: 6000000 INFO @ Wed, 22 Jul 2020 14:41:55: 1000000 INFO @ Wed, 22 Jul 2020 14:41:59: 7000000 INFO @ Wed, 22 Jul 2020 14:42:01: 2000000 INFO @ Wed, 22 Jul 2020 14:42:05: 8000000 INFO @ Wed, 22 Jul 2020 14:42:06: 3000000 INFO @ Wed, 22 Jul 2020 14:42:11: 9000000 INFO @ Wed, 22 Jul 2020 14:42:12: 4000000 INFO @ Wed, 22 Jul 2020 14:42:16: 10000000 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 14:42:18: 5000000 INFO @ Wed, 22 Jul 2020 14:42:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.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 14:42:19: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:42:19: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:42:22: 11000000 INFO @ Wed, 22 Jul 2020 14:42:24: 6000000 INFO @ Wed, 22 Jul 2020 14:42:25: 1000000 INFO @ Wed, 22 Jul 2020 14:42:29: 12000000 INFO @ Wed, 22 Jul 2020 14:42:31: 7000000 INFO @ Wed, 22 Jul 2020 14:42:31: 2000000 INFO @ Wed, 22 Jul 2020 14:42:35: 13000000 INFO @ Wed, 22 Jul 2020 14:42:37: 8000000 INFO @ Wed, 22 Jul 2020 14:42:38: 3000000 INFO @ Wed, 22 Jul 2020 14:42:41: 14000000 INFO @ Wed, 22 Jul 2020 14:42:44: 9000000 INFO @ Wed, 22 Jul 2020 14:42:45: 4000000 INFO @ Wed, 22 Jul 2020 14:42:47: 15000000 INFO @ Wed, 22 Jul 2020 14:42:50: 10000000 INFO @ Wed, 22 Jul 2020 14:42:51: 5000000 INFO @ Wed, 22 Jul 2020 14:42:53: 16000000 INFO @ Wed, 22 Jul 2020 14:42:56: 11000000 INFO @ Wed, 22 Jul 2020 14:42:58: 6000000 INFO @ Wed, 22 Jul 2020 14:42:59: 17000000 INFO @ Wed, 22 Jul 2020 14:43:03: 12000000 INFO @ Wed, 22 Jul 2020 14:43:04: 7000000 INFO @ Wed, 22 Jul 2020 14:43:06: 18000000 INFO @ Wed, 22 Jul 2020 14:43:07: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:43:07: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:43:07: #1 total tags in treatment: 8927957 INFO @ Wed, 22 Jul 2020 14:43:07: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:43:07: #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 14:43:07: #1 tags after filtering in treatment: 4865931 INFO @ Wed, 22 Jul 2020 14:43:07: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 22 Jul 2020 14:43:07: #1 finished! INFO @ Wed, 22 Jul 2020 14:43:07: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:43:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:43:08: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:43:08: 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 14:43:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.05_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/SRX8357699/SRX8357699.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:43:09: 13000000 INFO @ Wed, 22 Jul 2020 14:43:11: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:43:15: 14000000 INFO @ Wed, 22 Jul 2020 14:43:17: 9000000 INFO @ Wed, 22 Jul 2020 14:43:21: 15000000 INFO @ Wed, 22 Jul 2020 14:43:23: 10000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:43:27: 16000000 INFO @ Wed, 22 Jul 2020 14:43:30: 11000000 INFO @ Wed, 22 Jul 2020 14:43:34: 17000000 INFO @ Wed, 22 Jul 2020 14:43:36: 12000000 INFO @ Wed, 22 Jul 2020 14:43:40: 18000000 INFO @ Wed, 22 Jul 2020 14:43:41: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:43:41: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:43:41: #1 total tags in treatment: 8927957 INFO @ Wed, 22 Jul 2020 14:43:41: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:43:41: #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 14:43:42: #1 tags after filtering in treatment: 4865931 INFO @ Wed, 22 Jul 2020 14:43:42: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 22 Jul 2020 14:43:42: #1 finished! INFO @ Wed, 22 Jul 2020 14:43:42: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:43:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:43:42: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:43:42: 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 14:43:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.10_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/SRX8357699/SRX8357699.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:43:42: 13000000 INFO @ Wed, 22 Jul 2020 14:43:48: 14000000 INFO @ Wed, 22 Jul 2020 14:43:54: 15000000 INFO @ Wed, 22 Jul 2020 14:43:59: 16000000 INFO @ Wed, 22 Jul 2020 14:44:05: 17000000 INFO @ Wed, 22 Jul 2020 14:44:10: 18000000 INFO @ Wed, 22 Jul 2020 14:44:12: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:44:12: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:44:12: #1 total tags in treatment: 8927957 INFO @ Wed, 22 Jul 2020 14:44:12: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:44:12: #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 14:44:12: #1 tags after filtering in treatment: 4865931 INFO @ Wed, 22 Jul 2020 14:44:12: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 22 Jul 2020 14:44:12: #1 finished! INFO @ Wed, 22 Jul 2020 14:44:12: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:44:12: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:44:12: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:44:12: 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 14:44:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.20_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/sacCer3/SRX8357699/SRX8357699.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357699/SRX8357699.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling