Job ID = 7111711 SRX = SRX8357667 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:11:13 prefetch.2.10.7: 1) Downloading 'SRR11806255'... 2020-07-22T05:11:13 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:12:11 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:12:12 prefetch.2.10.7: 'SRR11806255' is valid 2020-07-22T05:12:12 prefetch.2.10.7: 1) 'SRR11806255' was downloaded successfully 2020-07-22T05:12:12 prefetch.2.10.7: 'SRR11806255' has 0 unresolved dependencies Read 15947812 spots for SRR11806255/SRR11806255.sra Written 15947812 spots for SRR11806255/SRR11806255.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: 00:08:56 15947812 reads; of these: 15947812 (100.00%) were paired; of these: 4802847 (30.12%) aligned concordantly 0 times 9032505 (56.64%) aligned concordantly exactly 1 time 2112460 (13.25%) aligned concordantly >1 times ---- 4802847 pairs aligned concordantly 0 times; of these: 64437 (1.34%) aligned discordantly 1 time ---- 4738410 pairs aligned 0 times concordantly or discordantly; of these: 9476820 mates make up the pairs; of these: 8983117 (94.79%) aligned 0 times 188482 (1.99%) aligned exactly 1 time 305221 (3.22%) aligned >1 times 71.84% overall alignment rate Time searching: 00:08:56 Overall time: 00:08:56 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] 4576953 / 11183958 = 0.4092 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 14:26:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.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 14:26:47: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:26:47: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:26:53: 1000000 INFO @ Wed, 22 Jul 2020 14:26:59: 2000000 INFO @ Wed, 22 Jul 2020 14:27:05: 3000000 INFO @ Wed, 22 Jul 2020 14:27:11: 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 @ Wed, 22 Jul 2020 14:27:16: 5000000 INFO @ Wed, 22 Jul 2020 14:27:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.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 14:27:17: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:27:17: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:27:23: 6000000 INFO @ Wed, 22 Jul 2020 14:27:24: 1000000 INFO @ Wed, 22 Jul 2020 14:27:29: 7000000 INFO @ Wed, 22 Jul 2020 14:27:31: 2000000 INFO @ Wed, 22 Jul 2020 14:27:35: 8000000 INFO @ Wed, 22 Jul 2020 14:27:38: 3000000 INFO @ Wed, 22 Jul 2020 14:27:42: 9000000 INFO @ Wed, 22 Jul 2020 14:27:44: 4000000 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 14:27:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.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 14:27:47: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:27:47: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:27:48: 10000000 INFO @ Wed, 22 Jul 2020 14:27:52: 5000000 INFO @ Wed, 22 Jul 2020 14:27:53: 1000000 INFO @ Wed, 22 Jul 2020 14:27:55: 11000000 INFO @ Wed, 22 Jul 2020 14:27:59: 6000000 INFO @ Wed, 22 Jul 2020 14:28:00: 2000000 INFO @ Wed, 22 Jul 2020 14:28:01: 12000000 INFO @ Wed, 22 Jul 2020 14:28:06: 7000000 INFO @ Wed, 22 Jul 2020 14:28:07: 3000000 INFO @ Wed, 22 Jul 2020 14:28:08: 13000000 INFO @ Wed, 22 Jul 2020 14:28:13: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:28:13: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:28:13: #1 total tags in treatment: 6588875 INFO @ Wed, 22 Jul 2020 14:28:13: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:28:13: #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 14:28:13: #1 tags after filtering in treatment: 3807586 INFO @ Wed, 22 Jul 2020 14:28:13: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 22 Jul 2020 14:28:13: #1 finished! INFO @ Wed, 22 Jul 2020 14:28:13: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:28:13: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:28:13: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:28:13: 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 14:28:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.05_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/SRX8357667/SRX8357667.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:28:13: 4000000 INFO @ Wed, 22 Jul 2020 14:28:14: 8000000 INFO @ Wed, 22 Jul 2020 14:28:20: 5000000 INFO @ Wed, 22 Jul 2020 14:28:21: 9000000 INFO @ Wed, 22 Jul 2020 14:28:27: 6000000 INFO @ Wed, 22 Jul 2020 14:28:28: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:28:33: 7000000 INFO @ Wed, 22 Jul 2020 14:28:35: 11000000 INFO @ Wed, 22 Jul 2020 14:28:40: 8000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:28:42: 12000000 INFO @ Wed, 22 Jul 2020 14:28:47: 9000000 INFO @ Wed, 22 Jul 2020 14:28:49: 13000000 INFO @ Wed, 22 Jul 2020 14:28:53: 10000000 INFO @ Wed, 22 Jul 2020 14:28:54: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:28:54: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:28:54: #1 total tags in treatment: 6588875 INFO @ Wed, 22 Jul 2020 14:28:54: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:28:54: #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 14:28:54: #1 tags after filtering in treatment: 3807586 INFO @ Wed, 22 Jul 2020 14:28:54: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 22 Jul 2020 14:28:54: #1 finished! INFO @ Wed, 22 Jul 2020 14:28:54: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:28:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:28:54: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:28:54: 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 14:28:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.10_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/SRX8357667/SRX8357667.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:28:59: 11000000 INFO @ Wed, 22 Jul 2020 14:29:04: 12000000 INFO @ Wed, 22 Jul 2020 14:29:10: 13000000 INFO @ Wed, 22 Jul 2020 14:29:14: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:29:14: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:29:14: #1 total tags in treatment: 6588875 INFO @ Wed, 22 Jul 2020 14:29:14: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:29:14: #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 14:29:14: #1 tags after filtering in treatment: 3807586 INFO @ Wed, 22 Jul 2020 14:29:14: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 22 Jul 2020 14:29:14: #1 finished! INFO @ Wed, 22 Jul 2020 14:29:14: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:29:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:29:14: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:29:14: 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 14:29:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.20_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/SRX8357667/SRX8357667.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357667/SRX8357667.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling