Job ID = 7115488 SRX = SRX8462236 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:08:50 prefetch.2.10.7: 1) Downloading 'SRR11915695'... 2020-07-22T06:08:50 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:09:39 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:09:40 prefetch.2.10.7: 'SRR11915695' is valid 2020-07-22T06:09:40 prefetch.2.10.7: 1) 'SRR11915695' was downloaded successfully 2020-07-22T06:09:40 prefetch.2.10.7: 'SRR11915695' has 0 unresolved dependencies Read 2687171 spots for SRR11915695/SRR11915695.sra Written 2687171 spots for SRR11915695/SRR11915695.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: 00:02:20 2687171 reads; of these: 2687171 (100.00%) were paired; of these: 193229 (7.19%) aligned concordantly 0 times 2167717 (80.67%) aligned concordantly exactly 1 time 326225 (12.14%) aligned concordantly >1 times ---- 193229 pairs aligned concordantly 0 times; of these: 17908 (9.27%) aligned discordantly 1 time ---- 175321 pairs aligned 0 times concordantly or discordantly; of these: 350642 mates make up the pairs; of these: 291226 (83.06%) aligned 0 times 45949 (13.10%) aligned exactly 1 time 13467 (3.84%) aligned >1 times 94.58% overall alignment rate Time searching: 00:02:20 Overall time: 00:02:20 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_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] 437631 / 2507851 = 0.1745 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 15:14:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.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 15:14:23: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:14:23: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:14:29: 1000000 INFO @ Wed, 22 Jul 2020 15:14:35: 2000000 INFO @ Wed, 22 Jul 2020 15:14:41: 3000000 INFO @ Wed, 22 Jul 2020 15:14:46: 4000000 INFO @ Wed, 22 Jul 2020 15:14:48: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:14:48: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:14:48: #1 total tags in treatment: 2057270 INFO @ Wed, 22 Jul 2020 15:14:48: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:14:48: #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 15:14:48: #1 tags after filtering in treatment: 1808681 INFO @ Wed, 22 Jul 2020 15:14:48: #1 Redundant rate of treatment: 0.12 INFO @ Wed, 22 Jul 2020 15:14:48: #1 finished! INFO @ Wed, 22 Jul 2020 15:14:48: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:14:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:14:48: #2 number of paired peaks: 83 WARNING @ Wed, 22 Jul 2020 15:14:48: Too few paired peaks (83) 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 15:14:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.05_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/SRX8462236/SRX8462236.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 15:14:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.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 15:14:53: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:14:53: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:14:59: 1000000 INFO @ Wed, 22 Jul 2020 15:15:05: 2000000 INFO @ Wed, 22 Jul 2020 15:15:10: 3000000 INFO @ Wed, 22 Jul 2020 15:15:16: 4000000 INFO @ Wed, 22 Jul 2020 15:15:17: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:15:17: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:15:17: #1 total tags in treatment: 2057270 INFO @ Wed, 22 Jul 2020 15:15:17: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:15:17: #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 15:15:17: #1 tags after filtering in treatment: 1808681 INFO @ Wed, 22 Jul 2020 15:15:17: #1 Redundant rate of treatment: 0.12 INFO @ Wed, 22 Jul 2020 15:15:17: #1 finished! INFO @ Wed, 22 Jul 2020 15:15:17: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:15:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:15:17: #2 number of paired peaks: 83 WARNING @ Wed, 22 Jul 2020 15:15:17: Too few paired peaks (83) 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 15:15:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.10_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/SRX8462236/SRX8462236.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 15:15:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.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 15:15:23: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:15:23: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:15:30: 1000000 INFO @ Wed, 22 Jul 2020 15:15:36: 2000000 INFO @ Wed, 22 Jul 2020 15:15:43: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:15:49: 4000000 INFO @ Wed, 22 Jul 2020 15:15:50: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:15:50: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:15:50: #1 total tags in treatment: 2057270 INFO @ Wed, 22 Jul 2020 15:15:50: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:15:50: #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 15:15:50: #1 tags after filtering in treatment: 1808681 INFO @ Wed, 22 Jul 2020 15:15:50: #1 Redundant rate of treatment: 0.12 INFO @ Wed, 22 Jul 2020 15:15:50: #1 finished! INFO @ Wed, 22 Jul 2020 15:15:50: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:15:50: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:15:50: #2 number of paired peaks: 83 WARNING @ Wed, 22 Jul 2020 15:15:50: Too few paired peaks (83) 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 15:15:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.20_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/SRX8462236/SRX8462236.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462236/SRX8462236.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。