Job ID = 7118028 SRX = SRX8639566 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T07:08:23 prefetch.2.10.7: 1) Downloading 'SRR12117004'... 2020-07-22T07:08:23 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:10:25 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:10:25 prefetch.2.10.7: 1) 'SRR12117004' was downloaded successfully 2020-07-22T07:10:25 prefetch.2.10.7: 'SRR12117004' has 0 unresolved dependencies Read 23431285 spots for SRR12117004/SRR12117004.sra Written 23431285 spots for SRR12117004/SRR12117004.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: 00:06:05 23431285 reads; of these: 23431285 (100.00%) were paired; of these: 15372608 (65.61%) aligned concordantly 0 times 7279016 (31.07%) aligned concordantly exactly 1 time 779661 (3.33%) aligned concordantly >1 times ---- 15372608 pairs aligned concordantly 0 times; of these: 294481 (1.92%) aligned discordantly 1 time ---- 15078127 pairs aligned 0 times concordantly or discordantly; of these: 30156254 mates make up the pairs; of these: 29896501 (99.14%) aligned 0 times 178726 (0.59%) aligned exactly 1 time 81027 (0.27%) aligned >1 times 36.20% overall alignment rate Time searching: 00:06:05 Overall time: 00:06:05 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] 87736 / 8334655 = 0.0105 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 16:22:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.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 16:22:12: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:22:12: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:22:17: 1000000 INFO @ Wed, 22 Jul 2020 16:22:21: 2000000 INFO @ Wed, 22 Jul 2020 16:22:26: 3000000 INFO @ Wed, 22 Jul 2020 16:22:31: 4000000 INFO @ Wed, 22 Jul 2020 16:22:35: 5000000 INFO @ Wed, 22 Jul 2020 16:22:40: 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 16:22:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.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 16:22:42: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:22:42: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:22:44: 7000000 INFO @ Wed, 22 Jul 2020 16:22:47: 1000000 INFO @ Wed, 22 Jul 2020 16:22:49: 8000000 INFO @ Wed, 22 Jul 2020 16:22:52: 2000000 INFO @ Wed, 22 Jul 2020 16:22:54: 9000000 INFO @ Wed, 22 Jul 2020 16:22:57: 3000000 INFO @ Wed, 22 Jul 2020 16:22:59: 10000000 INFO @ Wed, 22 Jul 2020 16:23:02: 4000000 INFO @ Wed, 22 Jul 2020 16:23:04: 11000000 INFO @ Wed, 22 Jul 2020 16:23:07: 5000000 INFO @ Wed, 22 Jul 2020 16:23:09: 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 16:23:12: 6000000 INFO @ Wed, 22 Jul 2020 16:23:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.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 16:23:12: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:23:12: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:23:14: 13000000 INFO @ Wed, 22 Jul 2020 16:23:17: 7000000 INFO @ Wed, 22 Jul 2020 16:23:17: 1000000 INFO @ Wed, 22 Jul 2020 16:23:19: 14000000 INFO @ Wed, 22 Jul 2020 16:23:22: 8000000 INFO @ Wed, 22 Jul 2020 16:23:22: 2000000 INFO @ Wed, 22 Jul 2020 16:23:24: 15000000 INFO @ Wed, 22 Jul 2020 16:23:27: 9000000 INFO @ Wed, 22 Jul 2020 16:23:27: 3000000 INFO @ Wed, 22 Jul 2020 16:23:29: 16000000 INFO @ Wed, 22 Jul 2020 16:23:31: 10000000 INFO @ Wed, 22 Jul 2020 16:23:32: 4000000 INFO @ Wed, 22 Jul 2020 16:23:33: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:23:33: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:23:33: #1 total tags in treatment: 7972306 INFO @ Wed, 22 Jul 2020 16:23:33: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:23:33: #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 16:23:33: #1 tags after filtering in treatment: 5790641 INFO @ Wed, 22 Jul 2020 16:23:33: #1 Redundant rate of treatment: 0.27 INFO @ Wed, 22 Jul 2020 16:23:33: #1 finished! INFO @ Wed, 22 Jul 2020 16:23:33: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:23:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:23:33: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:23:33: 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 16:23:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.05_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/SRX8639566/SRX8639566.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:23:36: 11000000 INFO @ Wed, 22 Jul 2020 16:23:37: 5000000 INFO @ Wed, 22 Jul 2020 16:23:41: 12000000 INFO @ Wed, 22 Jul 2020 16:23:42: 6000000 INFO @ Wed, 22 Jul 2020 16:23:46: 13000000 INFO @ Wed, 22 Jul 2020 16:23:47: 7000000 INFO @ Wed, 22 Jul 2020 16:23:51: 14000000 INFO @ Wed, 22 Jul 2020 16:23:52: 8000000 INFO @ Wed, 22 Jul 2020 16:23:56: 15000000 INFO @ Wed, 22 Jul 2020 16:23:57: 9000000 INFO @ Wed, 22 Jul 2020 16:24:02: 16000000 INFO @ Wed, 22 Jul 2020 16:24:02: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:24:06: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:24:06: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:24:06: #1 total tags in treatment: 7972306 INFO @ Wed, 22 Jul 2020 16:24:06: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:24:06: #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 16:24:06: #1 tags after filtering in treatment: 5790641 INFO @ Wed, 22 Jul 2020 16:24:06: #1 Redundant rate of treatment: 0.27 INFO @ Wed, 22 Jul 2020 16:24:06: #1 finished! INFO @ Wed, 22 Jul 2020 16:24:06: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:24:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:24:06: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:24:06: 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 16:24:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.10_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/SRX8639566/SRX8639566.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:24:07: 11000000 INFO @ Wed, 22 Jul 2020 16:24:12: 12000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:24:17: 13000000 INFO @ Wed, 22 Jul 2020 16:24:22: 14000000 INFO @ Wed, 22 Jul 2020 16:24:27: 15000000 INFO @ Wed, 22 Jul 2020 16:24:32: 16000000 INFO @ Wed, 22 Jul 2020 16:24:36: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:24:36: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:24:36: #1 total tags in treatment: 7972306 INFO @ Wed, 22 Jul 2020 16:24:36: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:24:36: #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 16:24:36: #1 tags after filtering in treatment: 5790641 INFO @ Wed, 22 Jul 2020 16:24:36: #1 Redundant rate of treatment: 0.27 INFO @ Wed, 22 Jul 2020 16:24:36: #1 finished! INFO @ Wed, 22 Jul 2020 16:24:36: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:24:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:24:36: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:24:36: 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 16:24:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.20_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/SRX8639566/SRX8639566.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639566/SRX8639566.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling