Job ID = 7118074 SRX = SRX8639573 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T07:10:16 prefetch.2.10.7: 1) Downloading 'SRR12117011'... 2020-07-22T07:10:16 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:12:11 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:12:11 prefetch.2.10.7: 1) 'SRR12117011' was downloaded successfully 2020-07-22T07:12:11 prefetch.2.10.7: 'SRR12117011' has 0 unresolved dependencies Read 24199835 spots for SRR12117011/SRR12117011.sra Written 24199835 spots for SRR12117011/SRR12117011.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: 00:06:35 24199835 reads; of these: 24199835 (100.00%) were paired; of these: 16484606 (68.12%) aligned concordantly 0 times 6966811 (28.79%) aligned concordantly exactly 1 time 748418 (3.09%) aligned concordantly >1 times ---- 16484606 pairs aligned concordantly 0 times; of these: 52194 (0.32%) aligned discordantly 1 time ---- 16432412 pairs aligned 0 times concordantly or discordantly; of these: 32864824 mates make up the pairs; of these: 32704379 (99.51%) aligned 0 times 123328 (0.38%) aligned exactly 1 time 37117 (0.11%) aligned >1 times 32.43% overall alignment rate Time searching: 00:06:35 Overall time: 00:06:35 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] 87441 / 7756881 = 0.0113 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 16:24:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.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 16:24:36: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:24:36: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:24:40: 1000000 INFO @ Wed, 22 Jul 2020 16:24:45: 2000000 INFO @ Wed, 22 Jul 2020 16:24:49: 3000000 INFO @ Wed, 22 Jul 2020 16:24:54: 4000000 INFO @ Wed, 22 Jul 2020 16:24:59: 5000000 INFO @ Wed, 22 Jul 2020 16:25:03: 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 16:25:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.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 16:25:06: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:25:06: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:25:08: 7000000 INFO @ Wed, 22 Jul 2020 16:25:10: 1000000 INFO @ Wed, 22 Jul 2020 16:25:12: 8000000 INFO @ Wed, 22 Jul 2020 16:25:15: 2000000 INFO @ Wed, 22 Jul 2020 16:25:17: 9000000 INFO @ Wed, 22 Jul 2020 16:25:20: 3000000 INFO @ Wed, 22 Jul 2020 16:25:22: 10000000 INFO @ Wed, 22 Jul 2020 16:25:24: 4000000 INFO @ Wed, 22 Jul 2020 16:25:26: 11000000 INFO @ Wed, 22 Jul 2020 16:25:29: 5000000 INFO @ Wed, 22 Jul 2020 16:25:33: 12000000 INFO @ Wed, 22 Jul 2020 16:25:34: 6000000 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 16:25:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.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 16:25:36: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:25:36: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:25:38: 7000000 INFO @ Wed, 22 Jul 2020 16:25:39: 13000000 INFO @ Wed, 22 Jul 2020 16:25:41: 1000000 INFO @ Wed, 22 Jul 2020 16:25:43: 8000000 INFO @ Wed, 22 Jul 2020 16:25:45: 14000000 INFO @ Wed, 22 Jul 2020 16:25:46: 2000000 INFO @ Wed, 22 Jul 2020 16:25:48: 9000000 INFO @ Wed, 22 Jul 2020 16:25:51: 3000000 INFO @ Wed, 22 Jul 2020 16:25:52: 15000000 INFO @ Wed, 22 Jul 2020 16:25:52: 10000000 INFO @ Wed, 22 Jul 2020 16:25:55: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:25:55: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:25:55: #1 total tags in treatment: 7627858 INFO @ Wed, 22 Jul 2020 16:25:55: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:25:55: #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 16:25:55: #1 tags after filtering in treatment: 5644984 INFO @ Wed, 22 Jul 2020 16:25:55: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 22 Jul 2020 16:25:55: #1 finished! INFO @ Wed, 22 Jul 2020 16:25:55: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:25:55: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:25:55: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:25:55: 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 16:25:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.05_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/SRX8639573/SRX8639573.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:25:56: 4000000 INFO @ Wed, 22 Jul 2020 16:25:57: 11000000 INFO @ Wed, 22 Jul 2020 16:26:01: 5000000 INFO @ Wed, 22 Jul 2020 16:26:01: 12000000 INFO @ Wed, 22 Jul 2020 16:26:06: 13000000 INFO @ Wed, 22 Jul 2020 16:26:06: 6000000 INFO @ Wed, 22 Jul 2020 16:26:11: 14000000 INFO @ Wed, 22 Jul 2020 16:26:11: 7000000 INFO @ Wed, 22 Jul 2020 16:26:15: 15000000 INFO @ Wed, 22 Jul 2020 16:26:16: 8000000 INFO @ Wed, 22 Jul 2020 16:26:18: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:26:18: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:26:18: #1 total tags in treatment: 7627858 INFO @ Wed, 22 Jul 2020 16:26:18: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:26:18: #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 16:26:18: #1 tags after filtering in treatment: 5644984 INFO @ Wed, 22 Jul 2020 16:26:18: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 22 Jul 2020 16:26:18: #1 finished! INFO @ Wed, 22 Jul 2020 16:26:18: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:26:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:26:18: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:26:18: 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 16:26:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.10_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/SRX8639573/SRX8639573.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:26:22: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:26:27: 10000000 INFO @ Wed, 22 Jul 2020 16:26:32: 11000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:26:37: 12000000 INFO @ Wed, 22 Jul 2020 16:26:42: 13000000 INFO @ Wed, 22 Jul 2020 16:26:47: 14000000 INFO @ Wed, 22 Jul 2020 16:26:52: 15000000 INFO @ Wed, 22 Jul 2020 16:26:55: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:26:55: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:26:55: #1 total tags in treatment: 7627858 INFO @ Wed, 22 Jul 2020 16:26:55: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:26:55: #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 16:26:55: #1 tags after filtering in treatment: 5644984 INFO @ Wed, 22 Jul 2020 16:26:55: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 22 Jul 2020 16:26:55: #1 finished! INFO @ Wed, 22 Jul 2020 16:26:55: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:26:55: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:26:55: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:26:55: 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 16:26:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.20_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/SRX8639573/SRX8639573.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639573/SRX8639573.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling