Job ID = 7099383 SRX = SRX6911505 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5673812 spots for SRR10191132/SRR10191132.sra Written 5673812 spots for SRR10191132/SRR10191132.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: 00:07:23 5673812 reads; of these: 5673812 (100.00%) were paired; of these: 2459870 (43.35%) aligned concordantly 0 times 2597810 (45.79%) aligned concordantly exactly 1 time 616132 (10.86%) aligned concordantly >1 times ---- 2459870 pairs aligned concordantly 0 times; of these: 1425964 (57.97%) aligned discordantly 1 time ---- 1033906 pairs aligned 0 times concordantly or discordantly; of these: 2067812 mates make up the pairs; of these: 962063 (46.53%) aligned 0 times 416787 (20.16%) aligned exactly 1 time 688962 (33.32%) aligned >1 times 91.52% overall alignment rate Time searching: 00:07:23 Overall time: 00:07:23 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] 441930 / 4638218 = 0.0953 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 12:15:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.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 12:15:38: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:15:38: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:15:46: 1000000 INFO @ Wed, 22 Jul 2020 12:15:54: 2000000 INFO @ Wed, 22 Jul 2020 12:16:02: 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 12:16:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.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 12:16:08: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:16:08: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:16:10: 4000000 INFO @ Wed, 22 Jul 2020 12:16:17: 1000000 INFO @ Wed, 22 Jul 2020 12:16:20: 5000000 INFO @ Wed, 22 Jul 2020 12:16:25: 2000000 INFO @ Wed, 22 Jul 2020 12:16:29: 6000000 INFO @ Wed, 22 Jul 2020 12:16:34: 3000000 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 12:16:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.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 12:16:38: #1 read tag files... INFO @ Wed, 22 Jul 2020 12:16:38: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 12:16:38: 7000000 INFO @ Wed, 22 Jul 2020 12:16:43: 4000000 INFO @ Wed, 22 Jul 2020 12:16:47: 1000000 INFO @ Wed, 22 Jul 2020 12:16:48: 8000000 INFO @ Wed, 22 Jul 2020 12:16:52: 5000000 INFO @ Wed, 22 Jul 2020 12:16:57: 2000000 INFO @ Wed, 22 Jul 2020 12:16:58: 9000000 INFO @ Wed, 22 Jul 2020 12:17:01: 6000000 INFO @ Wed, 22 Jul 2020 12:17:03: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:17:03: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:17:03: #1 total tags in treatment: 2884363 INFO @ Wed, 22 Jul 2020 12:17:03: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:17:03: #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 12:17:03: #1 tags after filtering in treatment: 2319334 INFO @ Wed, 22 Jul 2020 12:17:03: #1 Redundant rate of treatment: 0.20 INFO @ Wed, 22 Jul 2020 12:17:03: #1 finished! INFO @ Wed, 22 Jul 2020 12:17:03: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:17:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:17:03: #2 number of paired peaks: 65 WARNING @ Wed, 22 Jul 2020 12:17:03: Too few paired peaks (65) 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 12:17:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.05_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/SRX6911505/SRX6911505.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 12:17:06: 3000000 INFO @ Wed, 22 Jul 2020 12:17:10: 7000000 INFO @ Wed, 22 Jul 2020 12:17:16: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 12:17:19: 8000000 INFO @ Wed, 22 Jul 2020 12:17:25: 5000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 12:17:28: 9000000 INFO @ Wed, 22 Jul 2020 12:17:32: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:17:32: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:17:32: #1 total tags in treatment: 2884363 INFO @ Wed, 22 Jul 2020 12:17:32: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:17:32: #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 12:17:33: #1 tags after filtering in treatment: 2319334 INFO @ Wed, 22 Jul 2020 12:17:33: #1 Redundant rate of treatment: 0.20 INFO @ Wed, 22 Jul 2020 12:17:33: #1 finished! INFO @ Wed, 22 Jul 2020 12:17:33: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:17:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:17:33: #2 number of paired peaks: 65 WARNING @ Wed, 22 Jul 2020 12:17:33: Too few paired peaks (65) 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 12:17:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.10_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/SRX6911505/SRX6911505.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 12:17:35: 6000000 INFO @ Wed, 22 Jul 2020 12:17:44: 7000000 INFO @ Wed, 22 Jul 2020 12:17:52: 8000000 INFO @ Wed, 22 Jul 2020 12:18:01: 9000000 INFO @ Wed, 22 Jul 2020 12:18:05: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 12:18:05: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 12:18:05: #1 total tags in treatment: 2884363 INFO @ Wed, 22 Jul 2020 12:18:05: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 12:18:05: #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 12:18:05: #1 tags after filtering in treatment: 2319334 INFO @ Wed, 22 Jul 2020 12:18:05: #1 Redundant rate of treatment: 0.20 INFO @ Wed, 22 Jul 2020 12:18:05: #1 finished! INFO @ Wed, 22 Jul 2020 12:18:05: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 12:18:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 12:18:05: #2 number of paired peaks: 65 WARNING @ Wed, 22 Jul 2020 12:18:05: Too few paired peaks (65) 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 12:18:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.20_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/SRX6911505/SRX6911505.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911505/SRX6911505.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling