Job ID = 7118245 SRX = SRX8639584 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T07:11:40 prefetch.2.10.7: 1) Downloading 'SRR12117022'... 2020-07-22T07:11:40 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:14:13 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:14:13 prefetch.2.10.7: 1) 'SRR12117022' was downloaded successfully 2020-07-22T07:14:13 prefetch.2.10.7: 'SRR12117022' has 0 unresolved dependencies Read 30259024 spots for SRR12117022/SRR12117022.sra Written 30259024 spots for SRR12117022/SRR12117022.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: 00:08:20 30259024 reads; of these: 30259024 (100.00%) were paired; of these: 18834224 (62.24%) aligned concordantly 0 times 10265124 (33.92%) aligned concordantly exactly 1 time 1159676 (3.83%) aligned concordantly >1 times ---- 18834224 pairs aligned concordantly 0 times; of these: 95019 (0.50%) aligned discordantly 1 time ---- 18739205 pairs aligned 0 times concordantly or discordantly; of these: 37478410 mates make up the pairs; of these: 37233564 (99.35%) aligned 0 times 191207 (0.51%) aligned exactly 1 time 53639 (0.14%) aligned >1 times 38.48% overall alignment rate Time searching: 00:08:20 Overall time: 00:08:20 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 12 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] 158893 / 11509844 = 0.0138 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 16:29:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.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 16:29:59: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:29:59: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:30:06: 1000000 INFO @ Wed, 22 Jul 2020 16:30:13: 2000000 INFO @ Wed, 22 Jul 2020 16:30:20: 3000000 INFO @ Wed, 22 Jul 2020 16:30:27: 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 16:30:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.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 16:30:29: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:30:29: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:30:34: 5000000 INFO @ Wed, 22 Jul 2020 16:30:36: 1000000 INFO @ Wed, 22 Jul 2020 16:30:42: 6000000 INFO @ Wed, 22 Jul 2020 16:30:43: 2000000 INFO @ Wed, 22 Jul 2020 16:30:49: 7000000 INFO @ Wed, 22 Jul 2020 16:30:51: 3000000 INFO @ Wed, 22 Jul 2020 16:30:57: 8000000 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 16:30:58: 4000000 INFO @ Wed, 22 Jul 2020 16:30:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.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 16:30:59: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:30:59: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:31:05: 9000000 INFO @ Wed, 22 Jul 2020 16:31:06: 5000000 INFO @ Wed, 22 Jul 2020 16:31:07: 1000000 INFO @ Wed, 22 Jul 2020 16:31:13: 10000000 INFO @ Wed, 22 Jul 2020 16:31:14: 6000000 INFO @ Wed, 22 Jul 2020 16:31:15: 2000000 INFO @ Wed, 22 Jul 2020 16:31:20: 11000000 INFO @ Wed, 22 Jul 2020 16:31:21: 7000000 INFO @ Wed, 22 Jul 2020 16:31:22: 3000000 INFO @ Wed, 22 Jul 2020 16:31:28: 12000000 INFO @ Wed, 22 Jul 2020 16:31:29: 8000000 INFO @ Wed, 22 Jul 2020 16:31:30: 4000000 INFO @ Wed, 22 Jul 2020 16:31:35: 13000000 INFO @ Wed, 22 Jul 2020 16:31:36: 9000000 INFO @ Wed, 22 Jul 2020 16:31:37: 5000000 INFO @ Wed, 22 Jul 2020 16:31:43: 14000000 INFO @ Wed, 22 Jul 2020 16:31:44: 10000000 INFO @ Wed, 22 Jul 2020 16:31:45: 6000000 INFO @ Wed, 22 Jul 2020 16:31:51: 15000000 INFO @ Wed, 22 Jul 2020 16:31:51: 11000000 INFO @ Wed, 22 Jul 2020 16:31:52: 7000000 INFO @ Wed, 22 Jul 2020 16:31:58: 16000000 INFO @ Wed, 22 Jul 2020 16:31:59: 12000000 INFO @ Wed, 22 Jul 2020 16:31:59: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:32:06: 13000000 INFO @ Wed, 22 Jul 2020 16:32:06: 17000000 INFO @ Wed, 22 Jul 2020 16:32:07: 9000000 INFO @ Wed, 22 Jul 2020 16:32:13: 14000000 INFO @ Wed, 22 Jul 2020 16:32:14: 18000000 INFO @ Wed, 22 Jul 2020 16:32:14: 10000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:32:21: 15000000 INFO @ Wed, 22 Jul 2020 16:32:22: 11000000 INFO @ Wed, 22 Jul 2020 16:32:22: 19000000 INFO @ Wed, 22 Jul 2020 16:32:29: 16000000 INFO @ Wed, 22 Jul 2020 16:32:30: 12000000 INFO @ Wed, 22 Jul 2020 16:32:30: 20000000 INFO @ Wed, 22 Jul 2020 16:32:36: 17000000 INFO @ Wed, 22 Jul 2020 16:32:37: 13000000 INFO @ Wed, 22 Jul 2020 16:32:38: 21000000 INFO @ Wed, 22 Jul 2020 16:32:44: 18000000 INFO @ Wed, 22 Jul 2020 16:32:45: 14000000 INFO @ Wed, 22 Jul 2020 16:32:46: 22000000 INFO @ Wed, 22 Jul 2020 16:32:51: 19000000 INFO @ Wed, 22 Jul 2020 16:32:52: 15000000 INFO @ Wed, 22 Jul 2020 16:32:54: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:32:54: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:32:54: #1 total tags in treatment: 11266082 INFO @ Wed, 22 Jul 2020 16:32:54: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:32:54: #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 16:32:54: #1 tags after filtering in treatment: 7172197 INFO @ Wed, 22 Jul 2020 16:32:54: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 16:32:54: #1 finished! INFO @ Wed, 22 Jul 2020 16:32:54: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:32:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:32:55: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:32:55: 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 16:32:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.05_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/SRX8639584/SRX8639584.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:32:58: 20000000 INFO @ Wed, 22 Jul 2020 16:32:59: 16000000 INFO @ Wed, 22 Jul 2020 16:33:05: 21000000 INFO @ Wed, 22 Jul 2020 16:33:06: 17000000 INFO @ Wed, 22 Jul 2020 16:33:12: 22000000 INFO @ Wed, 22 Jul 2020 16:33:13: 18000000 INFO @ Wed, 22 Jul 2020 16:33:18: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:33:18: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:33:18: #1 total tags in treatment: 11266082 INFO @ Wed, 22 Jul 2020 16:33:18: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:33:18: #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 16:33:18: #1 tags after filtering in treatment: 7172197 INFO @ Wed, 22 Jul 2020 16:33:18: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 16:33:18: #1 finished! INFO @ Wed, 22 Jul 2020 16:33:18: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:33:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:33:19: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:33:19: 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 16:33:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.10_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/SRX8639584/SRX8639584.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:33:19: 19000000 INFO @ Wed, 22 Jul 2020 16:33:26: 20000000 INFO @ Wed, 22 Jul 2020 16:33:32: 21000000 INFO @ Wed, 22 Jul 2020 16:33:38: 22000000 INFO @ Wed, 22 Jul 2020 16:33:43: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:33:43: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:33:43: #1 total tags in treatment: 11266082 INFO @ Wed, 22 Jul 2020 16:33:43: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:33:43: #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 16:33:43: #1 tags after filtering in treatment: 7172197 INFO @ Wed, 22 Jul 2020 16:33:43: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 22 Jul 2020 16:33:43: #1 finished! INFO @ Wed, 22 Jul 2020 16:33:43: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:33:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:33:44: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:33:44: 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 16:33:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.20_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/SRX8639584/SRX8639584.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639584/SRX8639584.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling