Job ID = 7110213 SRX = SRX8036517 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 12340881 spots for SRR11458964/SRR11458964.sra Written 12340881 spots for SRR11458964/SRR11458964.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: 00:13:54 12340881 reads; of these: 12340881 (100.00%) were paired; of these: 372619 (3.02%) aligned concordantly 0 times 10466293 (84.81%) aligned concordantly exactly 1 time 1501969 (12.17%) aligned concordantly >1 times ---- 372619 pairs aligned concordantly 0 times; of these: 31375 (8.42%) aligned discordantly 1 time ---- 341244 pairs aligned 0 times concordantly or discordantly; of these: 682488 mates make up the pairs; of these: 611529 (89.60%) aligned 0 times 49518 (7.26%) aligned exactly 1 time 21441 (3.14%) aligned >1 times 97.52% overall alignment rate Time searching: 00:13:54 Overall time: 00:13:54 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 20 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] 2212304 / 11991518 = 0.1845 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 14:17:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.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 14:17:25: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:17:25: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:17:34: 1000000 INFO @ Wed, 22 Jul 2020 14:17:43: 2000000 INFO @ Wed, 22 Jul 2020 14:17:52: 3000000 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 14:17:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.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 14:17:55: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:17:55: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:18:02: 4000000 INFO @ Wed, 22 Jul 2020 14:18:06: 1000000 INFO @ Wed, 22 Jul 2020 14:18:13: 5000000 INFO @ Wed, 22 Jul 2020 14:18:17: 2000000 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 14:18:24: 6000000 INFO @ Wed, 22 Jul 2020 14:18:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.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 14:18:25: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:18:25: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:18:27: 3000000 INFO @ Wed, 22 Jul 2020 14:18:33: 7000000 INFO @ Wed, 22 Jul 2020 14:18:36: 1000000 INFO @ Wed, 22 Jul 2020 14:18:38: 4000000 INFO @ Wed, 22 Jul 2020 14:18:44: 8000000 INFO @ Wed, 22 Jul 2020 14:18:47: 2000000 INFO @ Wed, 22 Jul 2020 14:18:49: 5000000 INFO @ Wed, 22 Jul 2020 14:18:56: 9000000 INFO @ Wed, 22 Jul 2020 14:18:57: 3000000 INFO @ Wed, 22 Jul 2020 14:19:00: 6000000 INFO @ Wed, 22 Jul 2020 14:19:07: 10000000 INFO @ Wed, 22 Jul 2020 14:19:08: 4000000 INFO @ Wed, 22 Jul 2020 14:19:09: 7000000 INFO @ Wed, 22 Jul 2020 14:19:18: 11000000 INFO @ Wed, 22 Jul 2020 14:19:19: 5000000 INFO @ Wed, 22 Jul 2020 14:19:20: 8000000 INFO @ Wed, 22 Jul 2020 14:19:29: 6000000 INFO @ Wed, 22 Jul 2020 14:19:30: 12000000 INFO @ Wed, 22 Jul 2020 14:19:32: 9000000 INFO @ Wed, 22 Jul 2020 14:19:39: 7000000 INFO @ Wed, 22 Jul 2020 14:19:40: 13000000 INFO @ Wed, 22 Jul 2020 14:19:43: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:19:50: 14000000 INFO @ Wed, 22 Jul 2020 14:19:51: 8000000 INFO @ Wed, 22 Jul 2020 14:19:55: 11000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:20:00: 15000000 INFO @ Wed, 22 Jul 2020 14:20:03: 9000000 INFO @ Wed, 22 Jul 2020 14:20:07: 12000000 INFO @ Wed, 22 Jul 2020 14:20:11: 16000000 INFO @ Wed, 22 Jul 2020 14:20:15: 10000000 INFO @ Wed, 22 Jul 2020 14:20:17: 13000000 INFO @ Wed, 22 Jul 2020 14:20:21: 17000000 INFO @ Wed, 22 Jul 2020 14:20:26: 11000000 INFO @ Wed, 22 Jul 2020 14:20:27: 14000000 INFO @ Wed, 22 Jul 2020 14:20:31: 18000000 INFO @ Wed, 22 Jul 2020 14:20:37: 15000000 INFO @ Wed, 22 Jul 2020 14:20:38: 12000000 INFO @ Wed, 22 Jul 2020 14:20:42: 19000000 INFO @ Wed, 22 Jul 2020 14:20:48: 16000000 INFO @ Wed, 22 Jul 2020 14:20:48: 13000000 INFO @ Wed, 22 Jul 2020 14:20:48: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:20:48: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:20:48: #1 total tags in treatment: 9758825 INFO @ Wed, 22 Jul 2020 14:20:48: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:20:48: #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 14:20:48: #1 tags after filtering in treatment: 7122958 INFO @ Wed, 22 Jul 2020 14:20:48: #1 Redundant rate of treatment: 0.27 INFO @ Wed, 22 Jul 2020 14:20:48: #1 finished! INFO @ Wed, 22 Jul 2020 14:20:48: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:20:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:20:49: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:20:49: 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 14:20:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.05_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/SRX8036517/SRX8036517.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:20:57: 17000000 INFO @ Wed, 22 Jul 2020 14:20:58: 14000000 INFO @ Wed, 22 Jul 2020 14:21:07: 18000000 INFO @ Wed, 22 Jul 2020 14:21:07: 15000000 INFO @ Wed, 22 Jul 2020 14:21:17: 16000000 INFO @ Wed, 22 Jul 2020 14:21:17: 19000000 INFO @ Wed, 22 Jul 2020 14:21:24: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:21:24: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:21:24: #1 total tags in treatment: 9758825 INFO @ Wed, 22 Jul 2020 14:21:24: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:21:24: #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 14:21:24: #1 tags after filtering in treatment: 7122958 INFO @ Wed, 22 Jul 2020 14:21:24: #1 Redundant rate of treatment: 0.27 INFO @ Wed, 22 Jul 2020 14:21:24: #1 finished! INFO @ Wed, 22 Jul 2020 14:21:24: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:21:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:21:24: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:21:24: 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 14:21:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.10_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/SRX8036517/SRX8036517.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:21:27: 17000000 INFO @ Wed, 22 Jul 2020 14:21:35: 18000000 INFO @ Wed, 22 Jul 2020 14:21:45: 19000000 INFO @ Wed, 22 Jul 2020 14:21:50: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:21:50: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:21:50: #1 total tags in treatment: 9758825 INFO @ Wed, 22 Jul 2020 14:21:50: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:21:50: #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 14:21:50: #1 tags after filtering in treatment: 7122958 INFO @ Wed, 22 Jul 2020 14:21:50: #1 Redundant rate of treatment: 0.27 INFO @ Wed, 22 Jul 2020 14:21:50: #1 finished! INFO @ Wed, 22 Jul 2020 14:21:50: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:21:50: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:21:51: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:21:51: 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 14:21:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.20_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/SRX8036517/SRX8036517.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036517/SRX8036517.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling