Job ID = 7113368 SRX = SRX8357707 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:33:04 prefetch.2.10.7: 1) Downloading 'SRR11806245'... 2020-07-22T05:33:04 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:45:16 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:45:16 prefetch.2.10.7: 1) 'SRR11806245' was downloaded successfully 2020-07-22T05:45:16 prefetch.2.10.7: 'SRR11806245' has 0 unresolved dependencies Read 28125988 spots for SRR11806245/SRR11806245.sra Written 28125988 spots for SRR11806245/SRR11806245.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: 00:33:15 28125988 reads; of these: 28125988 (100.00%) were paired; of these: 9608995 (34.16%) aligned concordantly 0 times 15750568 (56.00%) aligned concordantly exactly 1 time 2766425 (9.84%) aligned concordantly >1 times ---- 9608995 pairs aligned concordantly 0 times; of these: 1275818 (13.28%) aligned discordantly 1 time ---- 8333177 pairs aligned 0 times concordantly or discordantly; of these: 16666354 mates make up the pairs; of these: 15598538 (93.59%) aligned 0 times 476221 (2.86%) aligned exactly 1 time 591595 (3.55%) aligned >1 times 72.27% overall alignment rate Time searching: 00:33:15 Overall time: 00:33:15 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 32 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] 11821058 / 19689622 = 0.6004 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 15:33:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.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 15:33:41: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:33:41: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:33:48: 1000000 INFO @ Wed, 22 Jul 2020 15:33:55: 2000000 INFO @ Wed, 22 Jul 2020 15:34:02: 3000000 INFO @ Wed, 22 Jul 2020 15:34:08: 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 15:34:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.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 15:34:11: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:34:11: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:34:15: 5000000 INFO @ Wed, 22 Jul 2020 15:34:18: 1000000 INFO @ Wed, 22 Jul 2020 15:34:22: 6000000 INFO @ Wed, 22 Jul 2020 15:34:25: 2000000 INFO @ Wed, 22 Jul 2020 15:34:28: 7000000 INFO @ Wed, 22 Jul 2020 15:34:32: 3000000 INFO @ Wed, 22 Jul 2020 15:34:35: 8000000 INFO @ Wed, 22 Jul 2020 15:34:38: 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 15:34:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.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 15:34:41: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:34:41: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:34:42: 9000000 INFO @ Wed, 22 Jul 2020 15:34:45: 5000000 INFO @ Wed, 22 Jul 2020 15:34:48: 1000000 INFO @ Wed, 22 Jul 2020 15:34:48: 10000000 INFO @ Wed, 22 Jul 2020 15:34:52: 6000000 INFO @ Wed, 22 Jul 2020 15:34:55: 11000000 INFO @ Wed, 22 Jul 2020 15:34:55: 2000000 INFO @ Wed, 22 Jul 2020 15:34:58: 7000000 INFO @ Wed, 22 Jul 2020 15:35:01: 12000000 INFO @ Wed, 22 Jul 2020 15:35:02: 3000000 INFO @ Wed, 22 Jul 2020 15:35:05: 8000000 INFO @ Wed, 22 Jul 2020 15:35:08: 13000000 INFO @ Wed, 22 Jul 2020 15:35:08: 4000000 INFO @ Wed, 22 Jul 2020 15:35:12: 9000000 INFO @ Wed, 22 Jul 2020 15:35:15: 14000000 INFO @ Wed, 22 Jul 2020 15:35:15: 5000000 INFO @ Wed, 22 Jul 2020 15:35:18: 10000000 INFO @ Wed, 22 Jul 2020 15:35:21: 15000000 INFO @ Wed, 22 Jul 2020 15:35:22: 6000000 INFO @ Wed, 22 Jul 2020 15:35:25: 11000000 INFO @ Wed, 22 Jul 2020 15:35:28: 16000000 INFO @ Wed, 22 Jul 2020 15:35:29: 7000000 INFO @ Wed, 22 Jul 2020 15:35:31: 12000000 INFO @ Wed, 22 Jul 2020 15:35:34: 17000000 INFO @ Wed, 22 Jul 2020 15:35:34: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 15:35:34: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 15:35:34: #1 total tags in treatment: 7007753 INFO @ Wed, 22 Jul 2020 15:35:34: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:35:34: #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 15:35:34: #1 tags after filtering in treatment: 3878093 INFO @ Wed, 22 Jul 2020 15:35:34: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 22 Jul 2020 15:35:34: #1 finished! INFO @ Wed, 22 Jul 2020 15:35:34: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:35:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:35:35: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:35:35: 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 15:35:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.05_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/SRX8357707/SRX8357707.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:35:35: 8000000 INFO @ Wed, 22 Jul 2020 15:35:38: 13000000 INFO @ Wed, 22 Jul 2020 15:35:42: 9000000 INFO @ Wed, 22 Jul 2020 15:35:44: 14000000 INFO @ Wed, 22 Jul 2020 15:35:48: 10000000 INFO @ Wed, 22 Jul 2020 15:35:51: 15000000 INFO @ Wed, 22 Jul 2020 15:35:55: 11000000 INFO @ Wed, 22 Jul 2020 15:35:57: 16000000 INFO @ Wed, 22 Jul 2020 15:36:01: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:36:04: 17000000 INFO @ Wed, 22 Jul 2020 15:36:04: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 15:36:04: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 15:36:04: #1 total tags in treatment: 7007753 INFO @ Wed, 22 Jul 2020 15:36:04: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:36:04: #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 15:36:04: #1 tags after filtering in treatment: 3878093 INFO @ Wed, 22 Jul 2020 15:36:04: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 22 Jul 2020 15:36:04: #1 finished! INFO @ Wed, 22 Jul 2020 15:36:04: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:36:04: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:36:04: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:36:04: 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 15:36:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.10_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/SRX8357707/SRX8357707.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:36:08: 13000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:36:14: 14000000 INFO @ Wed, 22 Jul 2020 15:36:21: 15000000 INFO @ Wed, 22 Jul 2020 15:36:27: 16000000 INFO @ Wed, 22 Jul 2020 15:36:33: 17000000 INFO @ Wed, 22 Jul 2020 15:36:33: #1 tag size is determined as 151 bps INFO @ Wed, 22 Jul 2020 15:36:33: #1 tag size = 151 INFO @ Wed, 22 Jul 2020 15:36:33: #1 total tags in treatment: 7007753 INFO @ Wed, 22 Jul 2020 15:36:33: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:36:33: #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 15:36:33: #1 tags after filtering in treatment: 3878093 INFO @ Wed, 22 Jul 2020 15:36:33: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 22 Jul 2020 15:36:33: #1 finished! INFO @ Wed, 22 Jul 2020 15:36:33: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:36:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:36:33: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:36:33: 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 15:36:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.20_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/SRX8357707/SRX8357707.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8357707/SRX8357707.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling