Job ID = 7115969 SRX = SRX8639466 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:13:39 prefetch.2.10.7: 1) Downloading 'SRR12116966'... 2020-07-22T06:13:39 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:14:44 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:14:44 prefetch.2.10.7: 1) 'SRR12116966' was downloaded successfully 2020-07-22T06:14:44 prefetch.2.10.7: 'SRR12116966' has 0 unresolved dependencies Read 15355181 spots for SRR12116966/SRR12116966.sra Written 15355181 spots for SRR12116966/SRR12116966.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: 00:08:22 15355181 reads; of these: 15355181 (100.00%) were paired; of these: 3423724 (22.30%) aligned concordantly 0 times 9037926 (58.86%) aligned concordantly exactly 1 time 2893531 (18.84%) aligned concordantly >1 times ---- 3423724 pairs aligned concordantly 0 times; of these: 304050 (8.88%) aligned discordantly 1 time ---- 3119674 pairs aligned 0 times concordantly or discordantly; of these: 6239348 mates make up the pairs; of these: 5671545 (90.90%) aligned 0 times 392198 (6.29%) aligned exactly 1 time 175605 (2.81%) aligned >1 times 81.53% overall alignment rate Time searching: 00:08:22 Overall time: 00:08:22 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] 840436 / 12222591 = 0.0688 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 15:29:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.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 15:29:57: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:29:57: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:30:02: 1000000 INFO @ Wed, 22 Jul 2020 15:30:07: 2000000 INFO @ Wed, 22 Jul 2020 15:30:11: 3000000 INFO @ Wed, 22 Jul 2020 15:30:16: 4000000 INFO @ Wed, 22 Jul 2020 15:30:21: 5000000 INFO @ Wed, 22 Jul 2020 15:30:25: 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 15:30:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.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 15:30:27: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:30:27: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:30:30: 7000000 INFO @ Wed, 22 Jul 2020 15:30:32: 1000000 INFO @ Wed, 22 Jul 2020 15:30:35: 8000000 INFO @ Wed, 22 Jul 2020 15:30:37: 2000000 INFO @ Wed, 22 Jul 2020 15:30:40: 9000000 INFO @ Wed, 22 Jul 2020 15:30:42: 3000000 INFO @ Wed, 22 Jul 2020 15:30:45: 10000000 INFO @ Wed, 22 Jul 2020 15:30:47: 4000000 INFO @ Wed, 22 Jul 2020 15:30:50: 11000000 INFO @ Wed, 22 Jul 2020 15:30:52: 5000000 INFO @ Wed, 22 Jul 2020 15:30:55: 12000000 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 15:30:57: 6000000 INFO @ Wed, 22 Jul 2020 15:30:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.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 15:30:57: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:30:57: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:31:00: 13000000 INFO @ Wed, 22 Jul 2020 15:31:02: 7000000 INFO @ Wed, 22 Jul 2020 15:31:02: 1000000 INFO @ Wed, 22 Jul 2020 15:31:05: 14000000 INFO @ Wed, 22 Jul 2020 15:31:07: 8000000 INFO @ Wed, 22 Jul 2020 15:31:07: 2000000 INFO @ Wed, 22 Jul 2020 15:31:09: 15000000 INFO @ Wed, 22 Jul 2020 15:31:12: 9000000 INFO @ Wed, 22 Jul 2020 15:31:12: 3000000 INFO @ Wed, 22 Jul 2020 15:31:14: 16000000 INFO @ Wed, 22 Jul 2020 15:31:17: 10000000 INFO @ Wed, 22 Jul 2020 15:31:17: 4000000 INFO @ Wed, 22 Jul 2020 15:31:19: 17000000 INFO @ Wed, 22 Jul 2020 15:31:22: 11000000 INFO @ Wed, 22 Jul 2020 15:31:22: 5000000 INFO @ Wed, 22 Jul 2020 15:31:24: 18000000 INFO @ Wed, 22 Jul 2020 15:31:27: 12000000 INFO @ Wed, 22 Jul 2020 15:31:27: 6000000 INFO @ Wed, 22 Jul 2020 15:31:29: 19000000 INFO @ Wed, 22 Jul 2020 15:31:32: 13000000 INFO @ Wed, 22 Jul 2020 15:31:33: 7000000 INFO @ Wed, 22 Jul 2020 15:31:34: 20000000 INFO @ Wed, 22 Jul 2020 15:31:37: 14000000 INFO @ Wed, 22 Jul 2020 15:31:38: 8000000 INFO @ Wed, 22 Jul 2020 15:31:39: 21000000 INFO @ Wed, 22 Jul 2020 15:31:42: 15000000 INFO @ Wed, 22 Jul 2020 15:31:43: 9000000 INFO @ Wed, 22 Jul 2020 15:31:43: 22000000 INFO @ Wed, 22 Jul 2020 15:31:47: 16000000 INFO @ Wed, 22 Jul 2020 15:31:48: 10000000 INFO @ Wed, 22 Jul 2020 15:31:48: 23000000 INFO @ Wed, 22 Jul 2020 15:31:50: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:31:50: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:31:50: #1 total tags in treatment: 11091548 INFO @ Wed, 22 Jul 2020 15:31:50: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:31:50: #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 15:31:50: #1 tags after filtering in treatment: 5968433 INFO @ Wed, 22 Jul 2020 15:31:50: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Jul 2020 15:31:50: #1 finished! INFO @ Wed, 22 Jul 2020 15:31:50: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:31:50: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:31:51: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:31:51: 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 15:31:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.05_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/SRX8639466/SRX8639466.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:31:52: 17000000 INFO @ Wed, 22 Jul 2020 15:31:53: 11000000 INFO @ Wed, 22 Jul 2020 15:31:57: 18000000 INFO @ Wed, 22 Jul 2020 15:31:58: 12000000 INFO @ Wed, 22 Jul 2020 15:32:02: 19000000 INFO @ Wed, 22 Jul 2020 15:32:03: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:32:07: 20000000 INFO @ Wed, 22 Jul 2020 15:32:08: 14000000 INFO @ Wed, 22 Jul 2020 15:32:11: 21000000 INFO @ Wed, 22 Jul 2020 15:32:12: 15000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:32:16: 22000000 INFO @ Wed, 22 Jul 2020 15:32:17: 16000000 INFO @ Wed, 22 Jul 2020 15:32:21: 23000000 INFO @ Wed, 22 Jul 2020 15:32:22: 17000000 INFO @ Wed, 22 Jul 2020 15:32:23: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:32:23: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:32:23: #1 total tags in treatment: 11091548 INFO @ Wed, 22 Jul 2020 15:32:23: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:32:23: #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 15:32:23: #1 tags after filtering in treatment: 5968433 INFO @ Wed, 22 Jul 2020 15:32:23: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Jul 2020 15:32:23: #1 finished! INFO @ Wed, 22 Jul 2020 15:32:23: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:32:23: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:32:23: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:32:23: 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 15:32:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.10_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/SRX8639466/SRX8639466.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:32:27: 18000000 INFO @ Wed, 22 Jul 2020 15:32:31: 19000000 INFO @ Wed, 22 Jul 2020 15:32:36: 20000000 INFO @ Wed, 22 Jul 2020 15:32:41: 21000000 INFO @ Wed, 22 Jul 2020 15:32:45: 22000000 INFO @ Wed, 22 Jul 2020 15:32:50: 23000000 INFO @ Wed, 22 Jul 2020 15:32:52: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:32:52: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:32:52: #1 total tags in treatment: 11091548 INFO @ Wed, 22 Jul 2020 15:32:52: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:32:52: #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 15:32:52: #1 tags after filtering in treatment: 5968433 INFO @ Wed, 22 Jul 2020 15:32:52: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Jul 2020 15:32:52: #1 finished! INFO @ Wed, 22 Jul 2020 15:32:52: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:32:52: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:32:52: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:32:52: 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 15:32:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.20_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/SRX8639466/SRX8639466.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639466/SRX8639466.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling