Job ID = 7118164 SRX = SRX8639578 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T07:11:25 prefetch.2.10.7: 1) Downloading 'SRR12117016'... 2020-07-22T07:11:25 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:12:56 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:12:56 prefetch.2.10.7: 1) 'SRR12117016' was downloaded successfully 2020-07-22T07:12:56 prefetch.2.10.7: 'SRR12117016' has 0 unresolved dependencies Read 20690254 spots for SRR12117016/SRR12117016.sra Written 20690254 spots for SRR12117016/SRR12117016.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 20690254 reads; of these: 20690254 (100.00%) were paired; of these: 11485741 (55.51%) aligned concordantly 0 times 8295318 (40.09%) aligned concordantly exactly 1 time 909195 (4.39%) aligned concordantly >1 times ---- 11485741 pairs aligned concordantly 0 times; of these: 139547 (1.21%) aligned discordantly 1 time ---- 11346194 pairs aligned 0 times concordantly or discordantly; of these: 22692388 mates make up the pairs; of these: 22573314 (99.48%) aligned 0 times 82068 (0.36%) aligned exactly 1 time 37006 (0.16%) aligned >1 times 45.45% 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] 101241 / 9334246 = 0.0108 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 16:25:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.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 16:25:04: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:25:04: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:25:08: 1000000 INFO @ Wed, 22 Jul 2020 16:25:12: 2000000 INFO @ Wed, 22 Jul 2020 16:25:16: 3000000 INFO @ Wed, 22 Jul 2020 16:25:20: 4000000 INFO @ Wed, 22 Jul 2020 16:25:24: 5000000 INFO @ Wed, 22 Jul 2020 16:25:28: 6000000 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 16:25:33: 7000000 INFO @ Wed, 22 Jul 2020 16:25:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.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 16:25:34: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:25:34: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:25:37: 8000000 INFO @ Wed, 22 Jul 2020 16:25:38: 1000000 INFO @ Wed, 22 Jul 2020 16:25:41: 9000000 INFO @ Wed, 22 Jul 2020 16:25:42: 2000000 INFO @ Wed, 22 Jul 2020 16:25:45: 10000000 INFO @ Wed, 22 Jul 2020 16:25:46: 3000000 INFO @ Wed, 22 Jul 2020 16:25:49: 11000000 INFO @ Wed, 22 Jul 2020 16:25:50: 4000000 INFO @ Wed, 22 Jul 2020 16:25:53: 12000000 INFO @ Wed, 22 Jul 2020 16:25:54: 5000000 INFO @ Wed, 22 Jul 2020 16:25:57: 13000000 INFO @ Wed, 22 Jul 2020 16:25:58: 6000000 INFO @ Wed, 22 Jul 2020 16:26:01: 14000000 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 16:26:03: 7000000 INFO @ Wed, 22 Jul 2020 16:26:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.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 16:26:04: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:26:04: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:26:05: 15000000 INFO @ Wed, 22 Jul 2020 16:26:07: 8000000 INFO @ Wed, 22 Jul 2020 16:26:08: 1000000 INFO @ Wed, 22 Jul 2020 16:26:09: 16000000 INFO @ Wed, 22 Jul 2020 16:26:11: 9000000 INFO @ Wed, 22 Jul 2020 16:26:12: 2000000 INFO @ Wed, 22 Jul 2020 16:26:13: 17000000 INFO @ Wed, 22 Jul 2020 16:26:15: 10000000 INFO @ Wed, 22 Jul 2020 16:26:16: 3000000 INFO @ Wed, 22 Jul 2020 16:26:18: 18000000 INFO @ Wed, 22 Jul 2020 16:26:19: 11000000 INFO @ Wed, 22 Jul 2020 16:26:20: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:26:20: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:26:20: #1 total tags in treatment: 9103366 INFO @ Wed, 22 Jul 2020 16:26:20: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:26:20: #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 16:26:20: 4000000 INFO @ Wed, 22 Jul 2020 16:26:20: #1 tags after filtering in treatment: 6517275 INFO @ Wed, 22 Jul 2020 16:26:20: #1 Redundant rate of treatment: 0.28 INFO @ Wed, 22 Jul 2020 16:26:20: #1 finished! INFO @ Wed, 22 Jul 2020 16:26:20: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:26:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:26:21: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:26:21: 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 16:26:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.05_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/SRX8639578/SRX8639578.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:26:23: 12000000 INFO @ Wed, 22 Jul 2020 16:26:24: 5000000 INFO @ Wed, 22 Jul 2020 16:26:27: 13000000 INFO @ Wed, 22 Jul 2020 16:26:28: 6000000 INFO @ Wed, 22 Jul 2020 16:26:31: 14000000 INFO @ Wed, 22 Jul 2020 16:26:33: 7000000 INFO @ Wed, 22 Jul 2020 16:26:35: 15000000 INFO @ Wed, 22 Jul 2020 16:26:37: 8000000 INFO @ Wed, 22 Jul 2020 16:26:39: 16000000 INFO @ Wed, 22 Jul 2020 16:26:41: 9000000 INFO @ Wed, 22 Jul 2020 16:26:43: 17000000 INFO @ Wed, 22 Jul 2020 16:26:45: 10000000 INFO @ Wed, 22 Jul 2020 16:26:47: 18000000 INFO @ Wed, 22 Jul 2020 16:26:49: 11000000 INFO @ Wed, 22 Jul 2020 16:26:50: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:26:50: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:26:50: #1 total tags in treatment: 9103366 INFO @ Wed, 22 Jul 2020 16:26:50: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:26:50: #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 16:26:50: #1 tags after filtering in treatment: 6517275 INFO @ Wed, 22 Jul 2020 16:26:50: #1 Redundant rate of treatment: 0.28 INFO @ Wed, 22 Jul 2020 16:26:50: #1 finished! INFO @ Wed, 22 Jul 2020 16:26:50: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:26:50: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:26:50: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:26:50: 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 16:26:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.10_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/SRX8639578/SRX8639578.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:26:53: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:26:57: 13000000 INFO @ Wed, 22 Jul 2020 16:27:01: 14000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:27:05: 15000000 INFO @ Wed, 22 Jul 2020 16:27:09: 16000000 INFO @ Wed, 22 Jul 2020 16:27:13: 17000000 INFO @ Wed, 22 Jul 2020 16:27:17: 18000000 INFO @ Wed, 22 Jul 2020 16:27:19: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:27:19: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:27:19: #1 total tags in treatment: 9103366 INFO @ Wed, 22 Jul 2020 16:27:19: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:27:19: #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 16:27:20: #1 tags after filtering in treatment: 6517275 INFO @ Wed, 22 Jul 2020 16:27:20: #1 Redundant rate of treatment: 0.28 INFO @ Wed, 22 Jul 2020 16:27:20: #1 finished! INFO @ Wed, 22 Jul 2020 16:27:20: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:27:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:27:20: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:27:20: 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 Jul 2020 16:27:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.20_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/SRX8639578/SRX8639578.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639578/SRX8639578.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling