Job ID = 7113138 SRX = SRX8357697 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:26:14 prefetch.2.10.7: 1) Downloading 'SRR11806285'... 2020-07-22T05:26:14 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:27:12 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:27:13 prefetch.2.10.7: 'SRR11806285' is valid 2020-07-22T05:27:13 prefetch.2.10.7: 1) 'SRR11806285' was downloaded successfully 2020-07-22T05:27:13 prefetch.2.10.7: 'SRR11806285' has 0 unresolved dependencies Read 9128399 spots for SRR11806285/SRR11806285.sra Written 9128399 spots for SRR11806285/SRR11806285.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: 00:04:53 9128399 reads; of these: 9128399 (100.00%) were paired; of these: 537643 (5.89%) aligned concordantly 0 times 7790357 (85.34%) aligned concordantly exactly 1 time 800399 (8.77%) aligned concordantly >1 times ---- 537643 pairs aligned concordantly 0 times; of these: 36818 (6.85%) aligned discordantly 1 time ---- 500825 pairs aligned 0 times concordantly or discordantly; of these: 1001650 mates make up the pairs; of these: 832051 (83.07%) aligned 0 times 131998 (13.18%) aligned exactly 1 time 37601 (3.75%) aligned >1 times 95.44% overall alignment rate Time searching: 00:04:53 Overall time: 00:04:53 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] 1179950 / 8610230 = 0.1370 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 14:37:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.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 14:37:11: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:37:11: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:37:16: 1000000 INFO @ Wed, 22 Jul 2020 14:37:20: 2000000 INFO @ Wed, 22 Jul 2020 14:37:24: 3000000 INFO @ Wed, 22 Jul 2020 14:37:29: 4000000 INFO @ Wed, 22 Jul 2020 14:37:33: 5000000 INFO @ Wed, 22 Jul 2020 14:37:37: 6000000 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 14:37:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.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 14:37:41: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:37:41: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:37:42: 7000000 INFO @ Wed, 22 Jul 2020 14:37:47: 8000000 INFO @ Wed, 22 Jul 2020 14:37:47: 1000000 INFO @ Wed, 22 Jul 2020 14:37:51: 9000000 INFO @ Wed, 22 Jul 2020 14:37:53: 2000000 INFO @ Wed, 22 Jul 2020 14:37:56: 10000000 INFO @ Wed, 22 Jul 2020 14:37:58: 3000000 INFO @ Wed, 22 Jul 2020 14:38:01: 11000000 INFO @ Wed, 22 Jul 2020 14:38:04: 4000000 INFO @ Wed, 22 Jul 2020 14:38:05: 12000000 INFO @ Wed, 22 Jul 2020 14:38:09: 5000000 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 14:38:10: 13000000 INFO @ Wed, 22 Jul 2020 14:38:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.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 14:38:11: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:38:11: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:38:15: 6000000 INFO @ Wed, 22 Jul 2020 14:38:15: 14000000 INFO @ Wed, 22 Jul 2020 14:38:17: 1000000 INFO @ Wed, 22 Jul 2020 14:38:20: 15000000 INFO @ Wed, 22 Jul 2020 14:38:20: 7000000 INFO @ Wed, 22 Jul 2020 14:38:20: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:38:20: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:38:20: #1 total tags in treatment: 7412073 INFO @ Wed, 22 Jul 2020 14:38:20: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:38:20: #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 14:38:20: #1 tags after filtering in treatment: 4254692 INFO @ Wed, 22 Jul 2020 14:38:20: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 22 Jul 2020 14:38:20: #1 finished! INFO @ Wed, 22 Jul 2020 14:38:20: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:38:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:38:20: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:38:20: 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 14:38:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.05_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/SRX8357697/SRX8357697.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:38:23: 2000000 INFO @ Wed, 22 Jul 2020 14:38:25: 8000000 INFO @ Wed, 22 Jul 2020 14:38:28: 3000000 INFO @ Wed, 22 Jul 2020 14:38:31: 9000000 INFO @ Wed, 22 Jul 2020 14:38:34: 4000000 INFO @ Wed, 22 Jul 2020 14:38:36: 10000000 INFO @ Wed, 22 Jul 2020 14:38:39: 5000000 INFO @ Wed, 22 Jul 2020 14:38:41: 11000000 INFO @ Wed, 22 Jul 2020 14:38:44: 6000000 INFO @ Wed, 22 Jul 2020 14:38:46: 12000000 INFO @ Wed, 22 Jul 2020 14:38:50: 7000000 INFO @ Wed, 22 Jul 2020 14:38:52: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:38:55: 8000000 INFO @ Wed, 22 Jul 2020 14:38:57: 14000000 INFO @ Wed, 22 Jul 2020 14:39:00: 9000000 INFO @ Wed, 22 Jul 2020 14:39:02: 15000000 INFO @ Wed, 22 Jul 2020 14:39:02: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:39:02: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:39:02: #1 total tags in treatment: 7412073 INFO @ Wed, 22 Jul 2020 14:39:02: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:39:02: #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 14:39:02: #1 tags after filtering in treatment: 4254692 INFO @ Wed, 22 Jul 2020 14:39:02: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 22 Jul 2020 14:39:02: #1 finished! INFO @ Wed, 22 Jul 2020 14:39:02: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:39:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:39:03: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:39:03: 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 14:39:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.10_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/SRX8357697/SRX8357697.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:39:06: 10000000 INFO @ Wed, 22 Jul 2020 14:39:11: 11000000 INFO @ Wed, 22 Jul 2020 14:39:15: 12000000 INFO @ Wed, 22 Jul 2020 14:39:20: 13000000 INFO @ Wed, 22 Jul 2020 14:39:25: 14000000 INFO @ Wed, 22 Jul 2020 14:39:30: 15000000 INFO @ Wed, 22 Jul 2020 14:39:30: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:39:30: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:39:30: #1 total tags in treatment: 7412073 INFO @ Wed, 22 Jul 2020 14:39:30: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:39:30: #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 14:39:30: #1 tags after filtering in treatment: 4254692 INFO @ Wed, 22 Jul 2020 14:39:30: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 22 Jul 2020 14:39:30: #1 finished! INFO @ Wed, 22 Jul 2020 14:39:30: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:39:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:39:31: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:39:31: 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 14:39:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.20_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/SRX8357697/SRX8357697.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357697/SRX8357697.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling