Job ID = 5791573 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 30,115,426 reads read : 60,230,852 reads written : 60,230,852 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: 00:14:12 30115426 reads; of these: 30115426 (100.00%) were paired; of these: 3222530 (10.70%) aligned concordantly 0 times 23821678 (79.10%) aligned concordantly exactly 1 time 3071218 (10.20%) aligned concordantly >1 times ---- 3222530 pairs aligned concordantly 0 times; of these: 44201 (1.37%) aligned discordantly 1 time ---- 3178329 pairs aligned 0 times concordantly or discordantly; of these: 6356658 mates make up the pairs; of these: 6104759 (96.04%) aligned 0 times 202663 (3.19%) aligned exactly 1 time 49236 (0.77%) aligned >1 times 89.86% overall alignment rate Time searching: 00:14:12 Overall time: 00:14:12 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 24 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] 20041620 / 26900846 = 0.7450 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 10:16:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.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 10:16:58: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:16:58: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:17:03: 1000000 INFO @ Wed, 22 Apr 2020 10:17:08: 2000000 INFO @ Wed, 22 Apr 2020 10:17:12: 3000000 INFO @ Wed, 22 Apr 2020 10:17:18: 4000000 INFO @ Wed, 22 Apr 2020 10:17:22: 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 Apr 2020 10:17:27: 6000000 INFO @ Wed, 22 Apr 2020 10:17:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.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 10:17:27: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:17:27: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:17:32: 7000000 INFO @ Wed, 22 Apr 2020 10:17:34: 1000000 INFO @ Wed, 22 Apr 2020 10:17:37: 8000000 INFO @ Wed, 22 Apr 2020 10:17:41: 9000000 INFO @ Wed, 22 Apr 2020 10:17:41: 2000000 INFO @ Wed, 22 Apr 2020 10:17:46: 10000000 INFO @ Wed, 22 Apr 2020 10:17:49: 3000000 INFO @ Wed, 22 Apr 2020 10:17:51: 11000000 INFO @ Wed, 22 Apr 2020 10:17:55: 12000000 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 10:17:56: 4000000 INFO @ Wed, 22 Apr 2020 10:17:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.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 10:17:57: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:17:57: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:18:00: 13000000 INFO @ Wed, 22 Apr 2020 10:18:03: 1000000 INFO @ Wed, 22 Apr 2020 10:18:03: 5000000 INFO @ Wed, 22 Apr 2020 10:18:05: 14000000 INFO @ Wed, 22 Apr 2020 10:18:05: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:18:05: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:18:05: #1 total tags in treatment: 6855203 INFO @ Wed, 22 Apr 2020 10:18:05: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:18:05: #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 10:18:05: #1 tags after filtering in treatment: 5447098 INFO @ Wed, 22 Apr 2020 10:18:05: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 22 Apr 2020 10:18:05: #1 finished! INFO @ Wed, 22 Apr 2020 10:18:05: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:18:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:18:05: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:18:05: 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 Apr 2020 10:18:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.05_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/SRX7409586/SRX7409586.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:18:08: 2000000 INFO @ Wed, 22 Apr 2020 10:18:10: 6000000 INFO @ Wed, 22 Apr 2020 10:18:13: 3000000 INFO @ Wed, 22 Apr 2020 10:18:17: 7000000 INFO @ Wed, 22 Apr 2020 10:18:19: 4000000 INFO @ Wed, 22 Apr 2020 10:18:23: 8000000 INFO @ Wed, 22 Apr 2020 10:18:25: 5000000 INFO @ Wed, 22 Apr 2020 10:18:30: 9000000 INFO @ Wed, 22 Apr 2020 10:18:30: 6000000 INFO @ Wed, 22 Apr 2020 10:18:36: 7000000 INFO @ Wed, 22 Apr 2020 10:18:37: 10000000 INFO @ Wed, 22 Apr 2020 10:18:41: 8000000 INFO @ Wed, 22 Apr 2020 10:18:43: 11000000 INFO @ Wed, 22 Apr 2020 10:18:47: 9000000 INFO @ Wed, 22 Apr 2020 10:18:50: 12000000 INFO @ Wed, 22 Apr 2020 10:18:52: 10000000 INFO @ Wed, 22 Apr 2020 10:18:56: 13000000 INFO @ Wed, 22 Apr 2020 10:18:58: 11000000 INFO @ Wed, 22 Apr 2020 10:19:03: 14000000 INFO @ Wed, 22 Apr 2020 10:19:03: 12000000 INFO @ Wed, 22 Apr 2020 10:19:03: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:19:03: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:19:03: #1 total tags in treatment: 6855203 INFO @ Wed, 22 Apr 2020 10:19:03: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:19:03: #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 10:19:03: #1 tags after filtering in treatment: 5447098 INFO @ Wed, 22 Apr 2020 10:19:03: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 22 Apr 2020 10:19:03: #1 finished! INFO @ Wed, 22 Apr 2020 10:19:03: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:19:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:19:04: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:19:04: 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 Apr 2020 10:19:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.10_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/SRX7409586/SRX7409586.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:19:08: 13000000 INFO @ Wed, 22 Apr 2020 10:19:14: 14000000 INFO @ Wed, 22 Apr 2020 10:19:14: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:19:14: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:19:14: #1 total tags in treatment: 6855203 INFO @ Wed, 22 Apr 2020 10:19:14: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:19:14: #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 10:19:14: #1 tags after filtering in treatment: 5447098 INFO @ Wed, 22 Apr 2020 10:19:14: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 22 Apr 2020 10:19:14: #1 finished! INFO @ Wed, 22 Apr 2020 10:19:14: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:19:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:19:14: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:19:14: 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 Apr 2020 10:19:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.20_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/SRX7409586/SRX7409586.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409586/SRX7409586.20_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。