Job ID = 7113571 SRX = SRX8462174 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:40:44 prefetch.2.10.7: 1) Downloading 'SRR11915633'... 2020-07-22T05:40:44 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:42:29 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:42:29 prefetch.2.10.7: 'SRR11915633' is valid 2020-07-22T05:42:29 prefetch.2.10.7: 1) 'SRR11915633' was downloaded successfully 2020-07-22T05:42:29 prefetch.2.10.7: 'SRR11915633' has 0 unresolved dependencies Read 7810890 spots for SRR11915633/SRR11915633.sra Written 7810890 spots for SRR11915633/SRR11915633.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: 00:06:34 7810890 reads; of these: 7810890 (100.00%) were paired; of these: 1123827 (14.39%) aligned concordantly 0 times 5706275 (73.06%) aligned concordantly exactly 1 time 980788 (12.56%) aligned concordantly >1 times ---- 1123827 pairs aligned concordantly 0 times; of these: 75741 (6.74%) aligned discordantly 1 time ---- 1048086 pairs aligned 0 times concordantly or discordantly; of these: 2096172 mates make up the pairs; of these: 1921322 (91.66%) aligned 0 times 122527 (5.85%) aligned exactly 1 time 52323 (2.50%) aligned >1 times 87.70% overall alignment rate Time searching: 00:06:34 Overall time: 00:06:34 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] 2427653 / 6754099 = 0.3594 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 14:54:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.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 14:54:15: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:54:15: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:54:21: 1000000 INFO @ Wed, 22 Jul 2020 14:54:26: 2000000 INFO @ Wed, 22 Jul 2020 14:54:32: 3000000 INFO @ Wed, 22 Jul 2020 14:54:38: 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 14:54:43: 5000000 INFO @ Wed, 22 Jul 2020 14:54:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.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 14:54:45: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:54:45: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:54:49: 6000000 INFO @ Wed, 22 Jul 2020 14:54:51: 1000000 INFO @ Wed, 22 Jul 2020 14:54:56: 7000000 INFO @ Wed, 22 Jul 2020 14:54:58: 2000000 INFO @ Wed, 22 Jul 2020 14:55:02: 8000000 INFO @ Wed, 22 Jul 2020 14:55:04: 3000000 INFO @ Wed, 22 Jul 2020 14:55:07: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 14:55:07: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 14:55:07: #1 total tags in treatment: 4267297 INFO @ Wed, 22 Jul 2020 14:55:07: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:55:07: #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 14:55:07: #1 tags after filtering in treatment: 3270919 INFO @ Wed, 22 Jul 2020 14:55:07: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 22 Jul 2020 14:55:07: #1 finished! INFO @ Wed, 22 Jul 2020 14:55:07: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:55:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:55:07: #2 number of paired peaks: 30 WARNING @ Wed, 22 Jul 2020 14:55:07: Too few paired peaks (30) 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 14:55:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.05_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/SRX8462174/SRX8462174.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:55:10: 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 14:55:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.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 14:55:15: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:55:15: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:55:16: 5000000 INFO @ Wed, 22 Jul 2020 14:55:21: 1000000 INFO @ Wed, 22 Jul 2020 14:55:22: 6000000 INFO @ Wed, 22 Jul 2020 14:55:27: 2000000 INFO @ Wed, 22 Jul 2020 14:55:28: 7000000 INFO @ Wed, 22 Jul 2020 14:55:34: 3000000 INFO @ Wed, 22 Jul 2020 14:55:35: 8000000 INFO @ Wed, 22 Jul 2020 14:55:40: 4000000 INFO @ Wed, 22 Jul 2020 14:55:40: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 14:55:40: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 14:55:40: #1 total tags in treatment: 4267297 INFO @ Wed, 22 Jul 2020 14:55:40: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:55:40: #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 14:55:40: #1 tags after filtering in treatment: 3270919 INFO @ Wed, 22 Jul 2020 14:55:40: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 22 Jul 2020 14:55:40: #1 finished! INFO @ Wed, 22 Jul 2020 14:55:40: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:55:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:55:40: #2 number of paired peaks: 30 WARNING @ Wed, 22 Jul 2020 14:55:40: Too few paired peaks (30) 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 14:55:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.10_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/SRX8462174/SRX8462174.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:55:46: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:55:52: 6000000 INFO @ Wed, 22 Jul 2020 14:55:57: 7000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:56:03: 8000000 INFO @ Wed, 22 Jul 2020 14:56:08: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 14:56:08: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 14:56:08: #1 total tags in treatment: 4267297 INFO @ Wed, 22 Jul 2020 14:56:08: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:56:08: #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 14:56:08: #1 tags after filtering in treatment: 3270919 INFO @ Wed, 22 Jul 2020 14:56:08: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 22 Jul 2020 14:56:08: #1 finished! INFO @ Wed, 22 Jul 2020 14:56:08: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:56:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:56:09: #2 number of paired peaks: 30 WARNING @ Wed, 22 Jul 2020 14:56:09: Too few paired peaks (30) 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 14:56:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.20_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/SRX8462174/SRX8462174.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462174/SRX8462174.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling