Job ID = 5791021 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 11,754,827 reads read : 23,509,654 reads written : 23,509,654 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:06:09 11754827 reads; of these: 11754827 (100.00%) were paired; of these: 391827 (3.33%) aligned concordantly 0 times 10244914 (87.15%) aligned concordantly exactly 1 time 1118086 (9.51%) aligned concordantly >1 times ---- 391827 pairs aligned concordantly 0 times; of these: 3711 (0.95%) aligned discordantly 1 time ---- 388116 pairs aligned 0 times concordantly or discordantly; of these: 776232 mates make up the pairs; of these: 705828 (90.93%) aligned 0 times 54109 (6.97%) aligned exactly 1 time 16295 (2.10%) aligned >1 times 97.00% overall alignment rate Time searching: 00:06:09 Overall time: 00:06:09 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] 1133638 / 11364744 = 0.0998 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 Apr 2020 08:32:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.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 Apr 2020 08:32:27: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:32:27: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:32:32: 1000000 INFO @ Wed, 22 Apr 2020 08:32:37: 2000000 INFO @ Wed, 22 Apr 2020 08:32:43: 3000000 INFO @ Wed, 22 Apr 2020 08:32:48: 4000000 INFO @ Wed, 22 Apr 2020 08:32:53: 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 Apr 2020 08:32:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.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 Apr 2020 08:32:57: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:32:57: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:32:59: 6000000 INFO @ Wed, 22 Apr 2020 08:33:02: 1000000 INFO @ Wed, 22 Apr 2020 08:33:04: 7000000 INFO @ Wed, 22 Apr 2020 08:33:07: 2000000 INFO @ Wed, 22 Apr 2020 08:33:10: 8000000 INFO @ Wed, 22 Apr 2020 08:33:12: 3000000 INFO @ Wed, 22 Apr 2020 08:33:15: 9000000 INFO @ Wed, 22 Apr 2020 08:33:17: 4000000 INFO @ Wed, 22 Apr 2020 08:33:20: 10000000 INFO @ Wed, 22 Apr 2020 08:33:22: 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 Apr 2020 08:33:26: 11000000 INFO @ Wed, 22 Apr 2020 08:33:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.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 Apr 2020 08:33:27: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:33:27: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:33:27: 6000000 INFO @ Wed, 22 Apr 2020 08:33:31: 12000000 INFO @ Wed, 22 Apr 2020 08:33:32: 7000000 INFO @ Wed, 22 Apr 2020 08:33:33: 1000000 INFO @ Wed, 22 Apr 2020 08:33:37: 13000000 INFO @ Wed, 22 Apr 2020 08:33:37: 8000000 INFO @ Wed, 22 Apr 2020 08:33:38: 2000000 INFO @ Wed, 22 Apr 2020 08:33:42: 9000000 INFO @ Wed, 22 Apr 2020 08:33:42: 14000000 INFO @ Wed, 22 Apr 2020 08:33:44: 3000000 INFO @ Wed, 22 Apr 2020 08:33:47: 10000000 INFO @ Wed, 22 Apr 2020 08:33:48: 15000000 INFO @ Wed, 22 Apr 2020 08:33:50: 4000000 INFO @ Wed, 22 Apr 2020 08:33:52: 11000000 INFO @ Wed, 22 Apr 2020 08:33:53: 16000000 INFO @ Wed, 22 Apr 2020 08:33:55: 5000000 INFO @ Wed, 22 Apr 2020 08:33:57: 12000000 INFO @ Wed, 22 Apr 2020 08:33:58: 17000000 INFO @ Wed, 22 Apr 2020 08:34:01: 6000000 INFO @ Wed, 22 Apr 2020 08:34:02: 13000000 INFO @ Wed, 22 Apr 2020 08:34:04: 18000000 INFO @ Wed, 22 Apr 2020 08:34:07: 7000000 INFO @ Wed, 22 Apr 2020 08:34:07: 14000000 INFO @ Wed, 22 Apr 2020 08:34:09: 19000000 INFO @ Wed, 22 Apr 2020 08:34:12: 15000000 INFO @ Wed, 22 Apr 2020 08:34:12: 8000000 INFO @ Wed, 22 Apr 2020 08:34:15: 20000000 INFO @ Wed, 22 Apr 2020 08:34:17: 16000000 INFO @ Wed, 22 Apr 2020 08:34:18: #1 tag size is determined as 42 bps INFO @ Wed, 22 Apr 2020 08:34:18: #1 tag size = 42 INFO @ Wed, 22 Apr 2020 08:34:18: #1 total tags in treatment: 10229626 INFO @ Wed, 22 Apr 2020 08:34:18: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:34:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:34:18: #1 tags after filtering in treatment: 7868251 INFO @ Wed, 22 Apr 2020 08:34:18: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 22 Apr 2020 08:34:18: #1 finished! INFO @ Wed, 22 Apr 2020 08:34:18: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:34:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:34:18: 9000000 INFO @ Wed, 22 Apr 2020 08:34:18: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 08:34:18: 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 Apr 2020 08:34:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.05_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/SRX5874517/SRX5874517.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:34:22: 17000000 INFO @ Wed, 22 Apr 2020 08:34:24: 10000000 INFO @ Wed, 22 Apr 2020 08:34:27: 18000000 INFO @ Wed, 22 Apr 2020 08:34:29: 11000000 INFO @ Wed, 22 Apr 2020 08:34:32: 19000000 INFO @ Wed, 22 Apr 2020 08:34:35: 12000000 INFO @ Wed, 22 Apr 2020 08:34:37: 20000000 INFO @ Wed, 22 Apr 2020 08:34:40: #1 tag size is determined as 42 bps INFO @ Wed, 22 Apr 2020 08:34:40: #1 tag size = 42 INFO @ Wed, 22 Apr 2020 08:34:40: #1 total tags in treatment: 10229626 INFO @ Wed, 22 Apr 2020 08:34:40: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:34:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:34:40: #1 tags after filtering in treatment: 7868251 INFO @ Wed, 22 Apr 2020 08:34:40: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 22 Apr 2020 08:34:40: #1 finished! INFO @ Wed, 22 Apr 2020 08:34:40: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:34:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:34:40: 13000000 INFO @ Wed, 22 Apr 2020 08:34:40: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 08:34:40: 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 Apr 2020 08:34:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.10_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/SRX5874517/SRX5874517.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:34:46: 14000000 INFO @ Wed, 22 Apr 2020 08:34:51: 15000000 INFO @ Wed, 22 Apr 2020 08:34:56: 16000000 INFO @ Wed, 22 Apr 2020 08:35:01: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 08:35:07: 18000000 INFO @ Wed, 22 Apr 2020 08:35:12: 19000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 08:35:17: 20000000 INFO @ Wed, 22 Apr 2020 08:35:19: #1 tag size is determined as 42 bps INFO @ Wed, 22 Apr 2020 08:35:19: #1 tag size = 42 INFO @ Wed, 22 Apr 2020 08:35:19: #1 total tags in treatment: 10229626 INFO @ Wed, 22 Apr 2020 08:35:19: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:35:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:35:20: #1 tags after filtering in treatment: 7868251 INFO @ Wed, 22 Apr 2020 08:35:20: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 22 Apr 2020 08:35:20: #1 finished! INFO @ Wed, 22 Apr 2020 08:35:20: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:35:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:35:20: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 08:35:20: 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 Apr 2020 08:35:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.20_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/SRX5874517/SRX5874517.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5874517/SRX5874517.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling