Job ID = 7118218 SRX = SRX8639582 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T07:11:59 prefetch.2.10.7: 1) Downloading 'SRR12117020'... 2020-07-22T07:11:59 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:14:44 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:14:44 prefetch.2.10.7: 1) 'SRR12117020' was downloaded successfully 2020-07-22T07:14:44 prefetch.2.10.7: 'SRR12117020' has 0 unresolved dependencies Read 34476433 spots for SRR12117020/SRR12117020.sra Written 34476433 spots for SRR12117020/SRR12117020.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: 00:09:10 34476433 reads; of these: 34476433 (100.00%) were paired; of these: 20689754 (60.01%) aligned concordantly 0 times 12411954 (36.00%) aligned concordantly exactly 1 time 1374725 (3.99%) aligned concordantly >1 times ---- 20689754 pairs aligned concordantly 0 times; of these: 163640 (0.79%) aligned discordantly 1 time ---- 20526114 pairs aligned 0 times concordantly or discordantly; of these: 41052228 mates make up the pairs; of these: 40775289 (99.33%) aligned 0 times 207404 (0.51%) aligned exactly 1 time 69535 (0.17%) aligned >1 times 40.86% overall alignment rate Time searching: 00:09:10 Overall time: 00:09:10 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] 197836 / 13935672 = 0.0142 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 16:32:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.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 16:32:28: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:32:28: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:32:33: 1000000 INFO @ Wed, 22 Jul 2020 16:32:38: 2000000 INFO @ Wed, 22 Jul 2020 16:32:43: 3000000 INFO @ Wed, 22 Jul 2020 16:32:48: 4000000 INFO @ Wed, 22 Jul 2020 16:32:53: 5000000 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 16:32:58: 6000000 INFO @ Wed, 22 Jul 2020 16:32:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.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 16:32:59: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:32:59: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:33:04: 7000000 INFO @ Wed, 22 Jul 2020 16:33:06: 1000000 INFO @ Wed, 22 Jul 2020 16:33:10: 8000000 INFO @ Wed, 22 Jul 2020 16:33:12: 2000000 INFO @ Wed, 22 Jul 2020 16:33:15: 9000000 INFO @ Wed, 22 Jul 2020 16:33:18: 3000000 INFO @ Wed, 22 Jul 2020 16:33:21: 10000000 INFO @ Wed, 22 Jul 2020 16:33:24: 4000000 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 16:33:27: 11000000 INFO @ Wed, 22 Jul 2020 16:33:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.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 16:33:28: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:33:28: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:33:30: 5000000 INFO @ Wed, 22 Jul 2020 16:33:33: 12000000 INFO @ Wed, 22 Jul 2020 16:33:34: 1000000 INFO @ Wed, 22 Jul 2020 16:33:36: 6000000 INFO @ Wed, 22 Jul 2020 16:33:38: 13000000 INFO @ Wed, 22 Jul 2020 16:33:40: 2000000 INFO @ Wed, 22 Jul 2020 16:33:42: 7000000 INFO @ Wed, 22 Jul 2020 16:33:44: 14000000 INFO @ Wed, 22 Jul 2020 16:33:46: 3000000 INFO @ Wed, 22 Jul 2020 16:33:49: 8000000 INFO @ Wed, 22 Jul 2020 16:33:50: 15000000 INFO @ Wed, 22 Jul 2020 16:33:52: 4000000 INFO @ Wed, 22 Jul 2020 16:33:55: 9000000 INFO @ Wed, 22 Jul 2020 16:33:56: 16000000 INFO @ Wed, 22 Jul 2020 16:33:57: 5000000 INFO @ Wed, 22 Jul 2020 16:34:01: 10000000 INFO @ Wed, 22 Jul 2020 16:34:02: 17000000 INFO @ Wed, 22 Jul 2020 16:34:03: 6000000 INFO @ Wed, 22 Jul 2020 16:34:07: 11000000 INFO @ Wed, 22 Jul 2020 16:34:08: 18000000 INFO @ Wed, 22 Jul 2020 16:34:09: 7000000 INFO @ Wed, 22 Jul 2020 16:34:13: 19000000 INFO @ Wed, 22 Jul 2020 16:34:14: 12000000 INFO @ Wed, 22 Jul 2020 16:34:15: 8000000 INFO @ Wed, 22 Jul 2020 16:34:19: 20000000 INFO @ Wed, 22 Jul 2020 16:34:20: 13000000 INFO @ Wed, 22 Jul 2020 16:34:21: 9000000 INFO @ Wed, 22 Jul 2020 16:34:25: 21000000 INFO @ Wed, 22 Jul 2020 16:34:26: 14000000 INFO @ Wed, 22 Jul 2020 16:34:26: 10000000 INFO @ Wed, 22 Jul 2020 16:34:31: 22000000 INFO @ Wed, 22 Jul 2020 16:34:32: 11000000 INFO @ Wed, 22 Jul 2020 16:34:32: 15000000 INFO @ Wed, 22 Jul 2020 16:34:36: 23000000 INFO @ Wed, 22 Jul 2020 16:34:38: 12000000 INFO @ Wed, 22 Jul 2020 16:34:38: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:34:42: 24000000 INFO @ Wed, 22 Jul 2020 16:34:44: 13000000 INFO @ Wed, 22 Jul 2020 16:34:45: 17000000 INFO @ Wed, 22 Jul 2020 16:34:48: 25000000 INFO @ Wed, 22 Jul 2020 16:34:50: 14000000 INFO @ Wed, 22 Jul 2020 16:34:51: 18000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:34:54: 26000000 INFO @ Wed, 22 Jul 2020 16:34:55: 15000000 INFO @ Wed, 22 Jul 2020 16:34:57: 19000000 INFO @ Wed, 22 Jul 2020 16:34:59: 27000000 INFO @ Wed, 22 Jul 2020 16:35:01: 16000000 INFO @ Wed, 22 Jul 2020 16:35:03: 20000000 INFO @ Wed, 22 Jul 2020 16:35:04: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:35:04: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:35:04: #1 total tags in treatment: 13589053 INFO @ Wed, 22 Jul 2020 16:35:04: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:35:04: #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 16:35:04: #1 tags after filtering in treatment: 8330579 INFO @ Wed, 22 Jul 2020 16:35:04: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 16:35:04: #1 finished! INFO @ Wed, 22 Jul 2020 16:35:04: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:35:04: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:35:05: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:35:05: 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 16:35:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.05_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/SRX8639582/SRX8639582.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:35:07: 17000000 INFO @ Wed, 22 Jul 2020 16:35:10: 21000000 INFO @ Wed, 22 Jul 2020 16:35:13: 18000000 INFO @ Wed, 22 Jul 2020 16:35:16: 22000000 INFO @ Wed, 22 Jul 2020 16:35:18: 19000000 INFO @ Wed, 22 Jul 2020 16:35:22: 23000000 INFO @ Wed, 22 Jul 2020 16:35:24: 20000000 INFO @ Wed, 22 Jul 2020 16:35:28: 24000000 INFO @ Wed, 22 Jul 2020 16:35:30: 21000000 INFO @ Wed, 22 Jul 2020 16:35:34: 25000000 INFO @ Wed, 22 Jul 2020 16:35:35: 22000000 INFO @ Wed, 22 Jul 2020 16:35:40: 26000000 INFO @ Wed, 22 Jul 2020 16:35:41: 23000000 INFO @ Wed, 22 Jul 2020 16:35:46: 27000000 INFO @ Wed, 22 Jul 2020 16:35:46: 24000000 INFO @ Wed, 22 Jul 2020 16:35:50: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:35:50: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:35:50: #1 total tags in treatment: 13589053 INFO @ Wed, 22 Jul 2020 16:35:50: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:35:50: #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 16:35:51: #1 tags after filtering in treatment: 8330579 INFO @ Wed, 22 Jul 2020 16:35:51: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 16:35:51: #1 finished! INFO @ Wed, 22 Jul 2020 16:35:51: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:35:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:35:51: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:35:51: 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 16:35:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.10_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/SRX8639582/SRX8639582.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:35:52: 25000000 INFO @ Wed, 22 Jul 2020 16:35:57: 26000000 INFO @ Wed, 22 Jul 2020 16:36:02: 27000000 INFO @ Wed, 22 Jul 2020 16:36:06: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:36:06: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:36:06: #1 total tags in treatment: 13589053 INFO @ Wed, 22 Jul 2020 16:36:06: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:36:06: #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 16:36:07: #1 tags after filtering in treatment: 8330579 INFO @ Wed, 22 Jul 2020 16:36:07: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 22 Jul 2020 16:36:07: #1 finished! INFO @ Wed, 22 Jul 2020 16:36:07: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:36:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:36:07: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:36:07: 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 16:36:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639582/SRX8639582.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling