Job ID = 7109497 SRX = SRX8036505 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 11503632 spots for SRR11458952/SRR11458952.sra Written 11503632 spots for SRR11458952/SRR11458952.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: 00:15:54 11503632 reads; of these: 11503632 (100.00%) were paired; of these: 392044 (3.41%) aligned concordantly 0 times 9261456 (80.51%) aligned concordantly exactly 1 time 1850132 (16.08%) aligned concordantly >1 times ---- 392044 pairs aligned concordantly 0 times; of these: 37678 (9.61%) aligned discordantly 1 time ---- 354366 pairs aligned 0 times concordantly or discordantly; of these: 708732 mates make up the pairs; of these: 635309 (89.64%) aligned 0 times 45264 (6.39%) aligned exactly 1 time 28159 (3.97%) aligned >1 times 97.24% overall alignment rate Time searching: 00:15:54 Overall time: 00:15:54 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] 1998254 / 11140691 = 0.1794 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 14:09:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.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 14:09:58: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:09:58: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:10:04: 1000000 INFO @ Wed, 22 Jul 2020 14:10:11: 2000000 INFO @ Wed, 22 Jul 2020 14:10:17: 3000000 INFO @ Wed, 22 Jul 2020 14:10:23: 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 14:10:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.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 14:10:28: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:10:28: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:10:30: 5000000 INFO @ Wed, 22 Jul 2020 14:10:34: 1000000 INFO @ Wed, 22 Jul 2020 14:10:36: 6000000 INFO @ Wed, 22 Jul 2020 14:10:41: 2000000 INFO @ Wed, 22 Jul 2020 14:10:42: 7000000 INFO @ Wed, 22 Jul 2020 14:10:47: 3000000 INFO @ Wed, 22 Jul 2020 14:10:49: 8000000 INFO @ Wed, 22 Jul 2020 14:10:54: 4000000 INFO @ Wed, 22 Jul 2020 14:10:55: 9000000 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 14:10:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.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 14:10:58: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:10:58: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:11:00: 5000000 INFO @ Wed, 22 Jul 2020 14:11:02: 10000000 INFO @ Wed, 22 Jul 2020 14:11:04: 1000000 INFO @ Wed, 22 Jul 2020 14:11:07: 6000000 INFO @ Wed, 22 Jul 2020 14:11:08: 11000000 INFO @ Wed, 22 Jul 2020 14:11:11: 2000000 INFO @ Wed, 22 Jul 2020 14:11:14: 7000000 INFO @ Wed, 22 Jul 2020 14:11:15: 12000000 INFO @ Wed, 22 Jul 2020 14:11:18: 3000000 INFO @ Wed, 22 Jul 2020 14:11:20: 8000000 INFO @ Wed, 22 Jul 2020 14:11:22: 13000000 INFO @ Wed, 22 Jul 2020 14:11:24: 4000000 INFO @ Wed, 22 Jul 2020 14:11:27: 9000000 INFO @ Wed, 22 Jul 2020 14:11:28: 14000000 INFO @ Wed, 22 Jul 2020 14:11:31: 5000000 INFO @ Wed, 22 Jul 2020 14:11:34: 10000000 INFO @ Wed, 22 Jul 2020 14:11:35: 15000000 INFO @ Wed, 22 Jul 2020 14:11:37: 6000000 INFO @ Wed, 22 Jul 2020 14:11:40: 11000000 INFO @ Wed, 22 Jul 2020 14:11:41: 16000000 INFO @ Wed, 22 Jul 2020 14:11:44: 7000000 INFO @ Wed, 22 Jul 2020 14:11:47: 12000000 INFO @ Wed, 22 Jul 2020 14:11:48: 17000000 INFO @ Wed, 22 Jul 2020 14:11:50: 8000000 INFO @ Wed, 22 Jul 2020 14:11:53: 13000000 INFO @ Wed, 22 Jul 2020 14:11:54: 18000000 INFO @ Wed, 22 Jul 2020 14:11:57: 9000000 INFO @ Wed, 22 Jul 2020 14:11:57: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:11:57: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:11:57: #1 total tags in treatment: 9116631 INFO @ Wed, 22 Jul 2020 14:11:57: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:11:57: #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 14:11:57: #1 tags after filtering in treatment: 6793089 INFO @ Wed, 22 Jul 2020 14:11:57: #1 Redundant rate of treatment: 0.25 INFO @ Wed, 22 Jul 2020 14:11:57: #1 finished! INFO @ Wed, 22 Jul 2020 14:11:57: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:11:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:11:58: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:11:58: 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 14:11:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.05_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/SRX8036505/SRX8036505.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:12:00: 14000000 INFO @ Wed, 22 Jul 2020 14:12:03: 10000000 INFO @ Wed, 22 Jul 2020 14:12:07: 15000000 INFO @ Wed, 22 Jul 2020 14:12:10: 11000000 INFO @ Wed, 22 Jul 2020 14:12:13: 16000000 INFO @ Wed, 22 Jul 2020 14:12:16: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:12:20: 17000000 INFO @ Wed, 22 Jul 2020 14:12:23: 13000000 INFO @ Wed, 22 Jul 2020 14:12:26: 18000000 INFO @ Wed, 22 Jul 2020 14:12:29: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:12:29: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:12:29: #1 total tags in treatment: 9116631 INFO @ Wed, 22 Jul 2020 14:12:29: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:12:29: #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 14:12:29: 14000000 INFO @ Wed, 22 Jul 2020 14:12:29: #1 tags after filtering in treatment: 6793089 INFO @ Wed, 22 Jul 2020 14:12:29: #1 Redundant rate of treatment: 0.25 INFO @ Wed, 22 Jul 2020 14:12:29: #1 finished! INFO @ Wed, 22 Jul 2020 14:12:29: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:12:29: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:12:30: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:12:30: 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 14:12:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.10_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/SRX8036505/SRX8036505.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:12:35: 15000000 INFO @ Wed, 22 Jul 2020 14:12:42: 16000000 INFO @ Wed, 22 Jul 2020 14:12:48: 17000000 INFO @ Wed, 22 Jul 2020 14:12:54: 18000000 INFO @ Wed, 22 Jul 2020 14:12:57: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:12:57: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:12:57: #1 total tags in treatment: 9116631 INFO @ Wed, 22 Jul 2020 14:12:57: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:12:57: #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 14:12:57: #1 tags after filtering in treatment: 6793089 INFO @ Wed, 22 Jul 2020 14:12:57: #1 Redundant rate of treatment: 0.25 INFO @ Wed, 22 Jul 2020 14:12:57: #1 finished! INFO @ Wed, 22 Jul 2020 14:12:57: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:12:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:12:57: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:12:57: 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 14:12:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.20_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/SRX8036505/SRX8036505.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036505/SRX8036505.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling