Job ID = 10224090 SRX = SRX8952646 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 15668928 spots for SRR12458240/SRR12458240.sra Written 15668928 spots for SRR12458240/SRR12458240.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: 00:03:54 15668928 reads; of these: 15668928 (100.00%) were paired; of these: 10424056 (66.53%) aligned concordantly 0 times 4436264 (28.31%) aligned concordantly exactly 1 time 808608 (5.16%) aligned concordantly >1 times ---- 10424056 pairs aligned concordantly 0 times; of these: 389884 (3.74%) aligned discordantly 1 time ---- 10034172 pairs aligned 0 times concordantly or discordantly; of these: 20068344 mates make up the pairs; of these: 19043004 (94.89%) aligned 0 times 639734 (3.19%) aligned exactly 1 time 385606 (1.92%) aligned >1 times 39.23% overall alignment rate Time searching: 00:03:54 Overall time: 00:03:54 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] 1753509 / 5607819 = 0.3127 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 @ Fri, 16 Oct 2020 09:30:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.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 @ Fri, 16 Oct 2020 09:30:00: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:30:00: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:30:05: 1000000 INFO @ Fri, 16 Oct 2020 09:30:10: 2000000 INFO @ Fri, 16 Oct 2020 09:30:15: 3000000 INFO @ Fri, 16 Oct 2020 09:30:19: 4000000 INFO @ Fri, 16 Oct 2020 09:30:24: 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 @ Fri, 16 Oct 2020 09:30:29: 6000000 INFO @ Fri, 16 Oct 2020 09:30:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.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 @ Fri, 16 Oct 2020 09:30:30: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:30:30: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:30:34: 7000000 INFO @ Fri, 16 Oct 2020 09:30:36: 1000000 INFO @ Fri, 16 Oct 2020 09:30:39: 8000000 INFO @ Fri, 16 Oct 2020 09:30:41: 2000000 INFO @ Fri, 16 Oct 2020 09:30:44: #1 tag size is determined as 45 bps INFO @ Fri, 16 Oct 2020 09:30:44: #1 tag size = 45 INFO @ Fri, 16 Oct 2020 09:30:44: #1 total tags in treatment: 3568156 INFO @ Fri, 16 Oct 2020 09:30:44: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:30:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:30:44: #1 tags after filtering in treatment: 2708775 INFO @ Fri, 16 Oct 2020 09:30:44: #1 Redundant rate of treatment: 0.24 INFO @ Fri, 16 Oct 2020 09:30:44: #1 finished! INFO @ Fri, 16 Oct 2020 09:30:44: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:30:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:30:44: #2 number of paired peaks: 98 WARNING @ Fri, 16 Oct 2020 09:30:44: Too few paired peaks (98) 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 @ Fri, 16 Oct 2020 09:30:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.05_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/SRX8952646/SRX8952646.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:30:46: 3000000 INFO @ Fri, 16 Oct 2020 09:30:51: 4000000 INFO @ Fri, 16 Oct 2020 09:30:57: 5000000 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 @ Fri, 16 Oct 2020 09:31:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.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 @ Fri, 16 Oct 2020 09:31:00: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:31:00: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:31:02: 6000000 INFO @ Fri, 16 Oct 2020 09:31:06: 1000000 INFO @ Fri, 16 Oct 2020 09:31:07: 7000000 INFO @ Fri, 16 Oct 2020 09:31:11: 2000000 INFO @ Fri, 16 Oct 2020 09:31:12: 8000000 INFO @ Fri, 16 Oct 2020 09:31:17: 3000000 INFO @ Fri, 16 Oct 2020 09:31:17: #1 tag size is determined as 45 bps INFO @ Fri, 16 Oct 2020 09:31:17: #1 tag size = 45 INFO @ Fri, 16 Oct 2020 09:31:17: #1 total tags in treatment: 3568156 INFO @ Fri, 16 Oct 2020 09:31:17: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:31:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:31:17: #1 tags after filtering in treatment: 2708775 INFO @ Fri, 16 Oct 2020 09:31:17: #1 Redundant rate of treatment: 0.24 INFO @ Fri, 16 Oct 2020 09:31:17: #1 finished! INFO @ Fri, 16 Oct 2020 09:31:17: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:31:17: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:31:17: #2 number of paired peaks: 98 WARNING @ Fri, 16 Oct 2020 09:31:17: Too few paired peaks (98) 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 @ Fri, 16 Oct 2020 09:31:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.10_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/SRX8952646/SRX8952646.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:31:22: 4000000 INFO @ Fri, 16 Oct 2020 09:31:27: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 09:31:32: 6000000 INFO @ Fri, 16 Oct 2020 09:31:37: 7000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 09:31:42: 8000000 INFO @ Fri, 16 Oct 2020 09:31:46: #1 tag size is determined as 45 bps INFO @ Fri, 16 Oct 2020 09:31:46: #1 tag size = 45 INFO @ Fri, 16 Oct 2020 09:31:46: #1 total tags in treatment: 3568156 INFO @ Fri, 16 Oct 2020 09:31:46: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:31:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:31:46: #1 tags after filtering in treatment: 2708775 INFO @ Fri, 16 Oct 2020 09:31:46: #1 Redundant rate of treatment: 0.24 INFO @ Fri, 16 Oct 2020 09:31:46: #1 finished! INFO @ Fri, 16 Oct 2020 09:31:46: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:31:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:31:46: #2 number of paired peaks: 98 WARNING @ Fri, 16 Oct 2020 09:31:46: Too few paired peaks (98) 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 @ Fri, 16 Oct 2020 09:31:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.20_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/SRX8952646/SRX8952646.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling