Job ID = 5790879 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 5,490,994 reads read : 10,981,988 reads written : 10,981,988 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:05:48 5490994 reads; of these: 5490994 (100.00%) were paired; of these: 9134 (0.17%) aligned concordantly 0 times 4396379 (80.07%) aligned concordantly exactly 1 time 1085481 (19.77%) aligned concordantly >1 times ---- 9134 pairs aligned concordantly 0 times; of these: 616 (6.74%) aligned discordantly 1 time ---- 8518 pairs aligned 0 times concordantly or discordantly; of these: 17036 mates make up the pairs; of these: 12291 (72.15%) aligned 0 times 1513 (8.88%) aligned exactly 1 time 3232 (18.97%) aligned >1 times 99.89% overall alignment rate Time searching: 00:05:48 Overall time: 00:05:48 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] 651745 / 5407485 = 0.1205 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 Apr 2020 08:14:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.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 Apr 2020 08:14:03: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:14:03: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:14:07: 1000000 INFO @ Wed, 22 Apr 2020 08:14:12: 2000000 INFO @ Wed, 22 Apr 2020 08:14:17: 3000000 INFO @ Wed, 22 Apr 2020 08:14:21: 4000000 INFO @ Wed, 22 Apr 2020 08:14:26: 5000000 INFO @ Wed, 22 Apr 2020 08:14:30: 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 Apr 2020 08:14:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.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 Apr 2020 08:14:33: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:14:33: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:14:35: 7000000 INFO @ Wed, 22 Apr 2020 08:14:38: 1000000 INFO @ Wed, 22 Apr 2020 08:14:40: 8000000 INFO @ Wed, 22 Apr 2020 08:14:43: 2000000 INFO @ Wed, 22 Apr 2020 08:14:45: 9000000 INFO @ Wed, 22 Apr 2020 08:14:48: 3000000 INFO @ Wed, 22 Apr 2020 08:14:49: #1 tag size is determined as 76 bps INFO @ Wed, 22 Apr 2020 08:14:49: #1 tag size = 76 INFO @ Wed, 22 Apr 2020 08:14:49: #1 total tags in treatment: 4830628 INFO @ Wed, 22 Apr 2020 08:14:49: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:14:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:14:49: #1 tags after filtering in treatment: 3902480 INFO @ Wed, 22 Apr 2020 08:14:49: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 22 Apr 2020 08:14:49: #1 finished! INFO @ Wed, 22 Apr 2020 08:14:49: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:14:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:14:49: #2 number of paired peaks: 28 WARNING @ Wed, 22 Apr 2020 08:14:49: Too few paired peaks (28) 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 Apr 2020 08:14:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.05_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/SRX5550815/SRX5550815.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:14:53: 4000000 INFO @ Wed, 22 Apr 2020 08:14:58: 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 @ Wed, 22 Apr 2020 08:15:02: 6000000 INFO @ Wed, 22 Apr 2020 08:15:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.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 Apr 2020 08:15:03: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:15:03: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:15:08: 7000000 INFO @ Wed, 22 Apr 2020 08:15:08: 1000000 INFO @ Wed, 22 Apr 2020 08:15:13: 8000000 INFO @ Wed, 22 Apr 2020 08:15:14: 2000000 INFO @ Wed, 22 Apr 2020 08:15:18: 9000000 INFO @ Wed, 22 Apr 2020 08:15:19: 3000000 INFO @ Wed, 22 Apr 2020 08:15:22: #1 tag size is determined as 76 bps INFO @ Wed, 22 Apr 2020 08:15:22: #1 tag size = 76 INFO @ Wed, 22 Apr 2020 08:15:22: #1 total tags in treatment: 4830628 INFO @ Wed, 22 Apr 2020 08:15:22: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:15:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:15:22: #1 tags after filtering in treatment: 3902480 INFO @ Wed, 22 Apr 2020 08:15:22: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 22 Apr 2020 08:15:22: #1 finished! INFO @ Wed, 22 Apr 2020 08:15:22: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:15:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:15:22: #2 number of paired peaks: 28 WARNING @ Wed, 22 Apr 2020 08:15:22: Too few paired peaks (28) 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 Apr 2020 08:15:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.10_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/SRX5550815/SRX5550815.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:15:24: 4000000 INFO @ Wed, 22 Apr 2020 08:15:29: 5000000 INFO @ Wed, 22 Apr 2020 08:15:34: 6000000 INFO @ Wed, 22 Apr 2020 08:15:39: 7000000 INFO @ Wed, 22 Apr 2020 08:15:45: 8000000 INFO @ Wed, 22 Apr 2020 08:15:49: 9000000 INFO @ Wed, 22 Apr 2020 08:15:53: #1 tag size is determined as 76 bps INFO @ Wed, 22 Apr 2020 08:15:53: #1 tag size = 76 INFO @ Wed, 22 Apr 2020 08:15:53: #1 total tags in treatment: 4830628 INFO @ Wed, 22 Apr 2020 08:15:53: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:15:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:15:53: #1 tags after filtering in treatment: 3902480 INFO @ Wed, 22 Apr 2020 08:15:53: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 22 Apr 2020 08:15:53: #1 finished! INFO @ Wed, 22 Apr 2020 08:15:53: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:15:53: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:15:53: #2 number of paired peaks: 28 WARNING @ Wed, 22 Apr 2020 08:15:53: Too few paired peaks (28) 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 Apr 2020 08:15:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.20_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/SRX5550815/SRX5550815.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5550815/SRX5550815.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。