Job ID = 7113275 SRX = SRX8357704 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:31:50 prefetch.2.10.7: 1) Downloading 'SRR11806292'... 2020-07-22T05:31:50 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:34:22 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:34:22 prefetch.2.10.7: 'SRR11806292' is valid 2020-07-22T05:34:22 prefetch.2.10.7: 1) 'SRR11806292' was downloaded successfully 2020-07-22T05:34:22 prefetch.2.10.7: 'SRR11806292' has 0 unresolved dependencies Read 11114466 spots for SRR11806292/SRR11806292.sra Written 11114466 spots for SRR11806292/SRR11806292.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: 00:05:40 11114466 reads; of these: 11114466 (100.00%) were paired; of these: 682540 (6.14%) aligned concordantly 0 times 9426751 (84.82%) aligned concordantly exactly 1 time 1005175 (9.04%) aligned concordantly >1 times ---- 682540 pairs aligned concordantly 0 times; of these: 61377 (8.99%) aligned discordantly 1 time ---- 621163 pairs aligned 0 times concordantly or discordantly; of these: 1242326 mates make up the pairs; of these: 1036991 (83.47%) aligned 0 times 130216 (10.48%) aligned exactly 1 time 75119 (6.05%) aligned >1 times 95.33% overall alignment rate Time searching: 00:05:40 Overall time: 00:05:40 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] 1427277 / 10473602 = 0.1363 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 14:46:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.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 14:46:06: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:46:06: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:46:11: 1000000 INFO @ Wed, 22 Jul 2020 14:46:16: 2000000 INFO @ Wed, 22 Jul 2020 14:46:21: 3000000 INFO @ Wed, 22 Jul 2020 14:46:26: 4000000 INFO @ Wed, 22 Jul 2020 14:46:31: 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 14:46:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.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 14:46:36: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:46:36: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:46:37: 6000000 INFO @ Wed, 22 Jul 2020 14:46:41: 1000000 INFO @ Wed, 22 Jul 2020 14:46:42: 7000000 INFO @ Wed, 22 Jul 2020 14:46:46: 2000000 INFO @ Wed, 22 Jul 2020 14:46:47: 8000000 INFO @ Wed, 22 Jul 2020 14:46:50: 3000000 INFO @ Wed, 22 Jul 2020 14:46:53: 9000000 INFO @ Wed, 22 Jul 2020 14:46:55: 4000000 INFO @ Wed, 22 Jul 2020 14:46:58: 10000000 INFO @ Wed, 22 Jul 2020 14:47:00: 5000000 INFO @ Wed, 22 Jul 2020 14:47:03: 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 14:47:05: 6000000 INFO @ Wed, 22 Jul 2020 14:47:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.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 14:47:06: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:47:06: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:47:09: 12000000 INFO @ Wed, 22 Jul 2020 14:47:10: 7000000 INFO @ Wed, 22 Jul 2020 14:47:11: 1000000 INFO @ Wed, 22 Jul 2020 14:47:14: 13000000 INFO @ Wed, 22 Jul 2020 14:47:15: 8000000 INFO @ Wed, 22 Jul 2020 14:47:16: 2000000 INFO @ Wed, 22 Jul 2020 14:47:19: 14000000 INFO @ Wed, 22 Jul 2020 14:47:20: 9000000 INFO @ Wed, 22 Jul 2020 14:47:21: 3000000 INFO @ Wed, 22 Jul 2020 14:47:25: 15000000 INFO @ Wed, 22 Jul 2020 14:47:25: 10000000 INFO @ Wed, 22 Jul 2020 14:47:26: 4000000 INFO @ Wed, 22 Jul 2020 14:47:30: 16000000 INFO @ Wed, 22 Jul 2020 14:47:30: 11000000 INFO @ Wed, 22 Jul 2020 14:47:31: 5000000 INFO @ Wed, 22 Jul 2020 14:47:35: 12000000 INFO @ Wed, 22 Jul 2020 14:47:35: 17000000 INFO @ Wed, 22 Jul 2020 14:47:36: 6000000 INFO @ Wed, 22 Jul 2020 14:47:40: 13000000 INFO @ Wed, 22 Jul 2020 14:47:41: 7000000 INFO @ Wed, 22 Jul 2020 14:47:41: 18000000 INFO @ Wed, 22 Jul 2020 14:47:43: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:47:43: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:47:43: #1 total tags in treatment: 9011544 INFO @ Wed, 22 Jul 2020 14:47:43: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:47:43: #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 14:47:43: #1 tags after filtering in treatment: 4917084 INFO @ Wed, 22 Jul 2020 14:47:43: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 22 Jul 2020 14:47:43: #1 finished! INFO @ Wed, 22 Jul 2020 14:47:43: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:47:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:47:43: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:47:43: 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 14:47:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.05_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/SRX8357704/SRX8357704.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:47:45: 14000000 INFO @ Wed, 22 Jul 2020 14:47:46: 8000000 INFO @ Wed, 22 Jul 2020 14:47:50: 15000000 INFO @ Wed, 22 Jul 2020 14:47:51: 9000000 INFO @ Wed, 22 Jul 2020 14:47:55: 16000000 INFO @ Wed, 22 Jul 2020 14:47:55: 10000000 INFO @ Wed, 22 Jul 2020 14:48:00: 11000000 INFO @ Wed, 22 Jul 2020 14:48:00: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:48:05: 12000000 INFO @ Wed, 22 Jul 2020 14:48:05: 18000000 INFO @ Wed, 22 Jul 2020 14:48:07: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:48:07: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:48:07: #1 total tags in treatment: 9011544 INFO @ Wed, 22 Jul 2020 14:48:07: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:48:07: #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 14:48:07: #1 tags after filtering in treatment: 4917084 INFO @ Wed, 22 Jul 2020 14:48:07: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 22 Jul 2020 14:48:07: #1 finished! INFO @ Wed, 22 Jul 2020 14:48:07: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:48:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:48:07: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:48:07: 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 14:48:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.10_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/SRX8357704/SRX8357704.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:48:10: 13000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:48:14: 14000000 INFO @ Wed, 22 Jul 2020 14:48:19: 15000000 INFO @ Wed, 22 Jul 2020 14:48:24: 16000000 INFO @ Wed, 22 Jul 2020 14:48:28: 17000000 INFO @ Wed, 22 Jul 2020 14:48:33: 18000000 INFO @ Wed, 22 Jul 2020 14:48:35: #1 tag size is determined as 51 bps INFO @ Wed, 22 Jul 2020 14:48:35: #1 tag size = 51 INFO @ Wed, 22 Jul 2020 14:48:35: #1 total tags in treatment: 9011544 INFO @ Wed, 22 Jul 2020 14:48:35: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:48:35: #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 14:48:35: #1 tags after filtering in treatment: 4917084 INFO @ Wed, 22 Jul 2020 14:48:35: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 22 Jul 2020 14:48:35: #1 finished! INFO @ Wed, 22 Jul 2020 14:48:35: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:48:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:48:35: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:48:35: 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 14:48:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357704/SRX8357704.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling