Job ID = 7118259 SRX = SRX8639585 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T07:11:44 prefetch.2.10.7: 1) Downloading 'SRR12117023'... 2020-07-22T07:11:44 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:14:04 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:14:04 prefetch.2.10.7: 1) 'SRR12117023' was downloaded successfully 2020-07-22T07:14:04 prefetch.2.10.7: 'SRR12117023' has 0 unresolved dependencies Read 30068049 spots for SRR12117023/SRR12117023.sra Written 30068049 spots for SRR12117023/SRR12117023.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: 00:08:18 30068049 reads; of these: 30068049 (100.00%) were paired; of these: 18425470 (61.28%) aligned concordantly 0 times 10514981 (34.97%) aligned concordantly exactly 1 time 1127598 (3.75%) aligned concordantly >1 times ---- 18425470 pairs aligned concordantly 0 times; of these: 91394 (0.50%) aligned discordantly 1 time ---- 18334076 pairs aligned 0 times concordantly or discordantly; of these: 36668152 mates make up the pairs; of these: 36468977 (99.46%) aligned 0 times 152784 (0.42%) aligned exactly 1 time 46391 (0.13%) aligned >1 times 39.36% overall alignment rate Time searching: 00:08:18 Overall time: 00:08:18 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] 156243 / 11723665 = 0.0133 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 16:29:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.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 16:29:45: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:29:45: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:29:51: 1000000 INFO @ Wed, 22 Jul 2020 16:29:58: 2000000 INFO @ Wed, 22 Jul 2020 16:30:05: 3000000 INFO @ Wed, 22 Jul 2020 16:30:11: 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 16:30:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.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 16:30:15: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:30:15: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:30:18: 5000000 INFO @ Wed, 22 Jul 2020 16:30:21: 1000000 INFO @ Wed, 22 Jul 2020 16:30:26: 6000000 INFO @ Wed, 22 Jul 2020 16:30:27: 2000000 INFO @ Wed, 22 Jul 2020 16:30:33: 7000000 INFO @ Wed, 22 Jul 2020 16:30:34: 3000000 INFO @ Wed, 22 Jul 2020 16:30:40: 4000000 INFO @ Wed, 22 Jul 2020 16:30:41: 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 16:30:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.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 16:30:45: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:30:45: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:30:47: 5000000 INFO @ Wed, 22 Jul 2020 16:30:48: 9000000 INFO @ Wed, 22 Jul 2020 16:30:53: 1000000 INFO @ Wed, 22 Jul 2020 16:30:53: 6000000 INFO @ Wed, 22 Jul 2020 16:30:55: 10000000 INFO @ Wed, 22 Jul 2020 16:31:00: 7000000 INFO @ Wed, 22 Jul 2020 16:31:00: 2000000 INFO @ Wed, 22 Jul 2020 16:31:03: 11000000 INFO @ Wed, 22 Jul 2020 16:31:07: 8000000 INFO @ Wed, 22 Jul 2020 16:31:08: 3000000 INFO @ Wed, 22 Jul 2020 16:31:11: 12000000 INFO @ Wed, 22 Jul 2020 16:31:13: 9000000 INFO @ Wed, 22 Jul 2020 16:31:16: 4000000 INFO @ Wed, 22 Jul 2020 16:31:19: 13000000 INFO @ Wed, 22 Jul 2020 16:31:20: 10000000 INFO @ Wed, 22 Jul 2020 16:31:24: 5000000 INFO @ Wed, 22 Jul 2020 16:31:26: 14000000 INFO @ Wed, 22 Jul 2020 16:31:27: 11000000 INFO @ Wed, 22 Jul 2020 16:31:32: 6000000 INFO @ Wed, 22 Jul 2020 16:31:34: 12000000 INFO @ Wed, 22 Jul 2020 16:31:34: 15000000 INFO @ Wed, 22 Jul 2020 16:31:39: 7000000 INFO @ Wed, 22 Jul 2020 16:31:40: 13000000 INFO @ Wed, 22 Jul 2020 16:31:42: 16000000 INFO @ Wed, 22 Jul 2020 16:31:47: 14000000 INFO @ Wed, 22 Jul 2020 16:31:47: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:31:49: 17000000 INFO @ Wed, 22 Jul 2020 16:31:53: 15000000 INFO @ Wed, 22 Jul 2020 16:31:54: 9000000 INFO @ Wed, 22 Jul 2020 16:31:57: 18000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:32:00: 16000000 INFO @ Wed, 22 Jul 2020 16:32:02: 10000000 INFO @ Wed, 22 Jul 2020 16:32:04: 19000000 INFO @ Wed, 22 Jul 2020 16:32:07: 17000000 INFO @ Wed, 22 Jul 2020 16:32:09: 11000000 INFO @ Wed, 22 Jul 2020 16:32:12: 20000000 INFO @ Wed, 22 Jul 2020 16:32:13: 18000000 INFO @ Wed, 22 Jul 2020 16:32:17: 12000000 INFO @ Wed, 22 Jul 2020 16:32:19: 21000000 INFO @ Wed, 22 Jul 2020 16:32:20: 19000000 INFO @ Wed, 22 Jul 2020 16:32:24: 13000000 INFO @ Wed, 22 Jul 2020 16:32:26: 20000000 INFO @ Wed, 22 Jul 2020 16:32:27: 22000000 INFO @ Wed, 22 Jul 2020 16:32:31: 14000000 INFO @ Wed, 22 Jul 2020 16:32:33: 21000000 INFO @ Wed, 22 Jul 2020 16:32:34: 23000000 INFO @ Wed, 22 Jul 2020 16:32:37: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:32:37: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:32:37: #1 total tags in treatment: 11486453 INFO @ Wed, 22 Jul 2020 16:32:37: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:32:37: #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 16:32:37: #1 tags after filtering in treatment: 7437745 INFO @ Wed, 22 Jul 2020 16:32:37: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 16:32:37: #1 finished! INFO @ Wed, 22 Jul 2020 16:32:37: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:32:37: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:32:38: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:32:38: 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 16:32:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.05_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/SRX8639585/SRX8639585.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:32:39: 15000000 INFO @ Wed, 22 Jul 2020 16:32:40: 22000000 INFO @ Wed, 22 Jul 2020 16:32:46: 16000000 INFO @ Wed, 22 Jul 2020 16:32:46: 23000000 INFO @ Wed, 22 Jul 2020 16:32:48: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:32:48: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:32:48: #1 total tags in treatment: 11486453 INFO @ Wed, 22 Jul 2020 16:32:48: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:32:48: #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 16:32:49: #1 tags after filtering in treatment: 7437745 INFO @ Wed, 22 Jul 2020 16:32:49: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 16:32:49: #1 finished! INFO @ Wed, 22 Jul 2020 16:32:49: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:32:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:32:49: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:32:49: 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 16:32:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.10_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/SRX8639585/SRX8639585.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:32:53: 17000000 INFO @ Wed, 22 Jul 2020 16:32:59: 18000000 INFO @ Wed, 22 Jul 2020 16:33:06: 19000000 INFO @ Wed, 22 Jul 2020 16:33:12: 20000000 INFO @ Wed, 22 Jul 2020 16:33:18: 21000000 INFO @ Wed, 22 Jul 2020 16:33:25: 22000000 INFO @ Wed, 22 Jul 2020 16:33:31: 23000000 INFO @ Wed, 22 Jul 2020 16:33:33: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:33:33: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:33:33: #1 total tags in treatment: 11486453 INFO @ Wed, 22 Jul 2020 16:33:33: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:33:33: #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 16:33:33: #1 tags after filtering in treatment: 7437745 INFO @ Wed, 22 Jul 2020 16:33:33: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 16:33:33: #1 finished! INFO @ Wed, 22 Jul 2020 16:33:33: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:33:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:33:34: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:33:34: 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 16:33:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.20_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/SRX8639585/SRX8639585.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639585/SRX8639585.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling