Job ID = 14521348 SRX = SRX10468555 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3860391 spots for SRR14094865/SRR14094865.sra Written 3860391 spots for SRR14094865/SRR14094865.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: 00:01:12 3860391 reads; of these: 3860391 (100.00%) were paired; of these: 735916 (19.06%) aligned concordantly 0 times 2646899 (68.57%) aligned concordantly exactly 1 time 477576 (12.37%) aligned concordantly >1 times ---- 735916 pairs aligned concordantly 0 times; of these: 30816 (4.19%) aligned discordantly 1 time ---- 705100 pairs aligned 0 times concordantly or discordantly; of these: 1410200 mates make up the pairs; of these: 1337236 (94.83%) aligned 0 times 48262 (3.42%) aligned exactly 1 time 24702 (1.75%) aligned >1 times 82.68% overall alignment rate Time searching: 00:01:12 Overall time: 00:01:12 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_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] 54740 / 3126861 = 0.0175 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 20:54:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.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 @ Sat, 15 Jan 2022 20:54:58: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:54:58: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:55:03: 1000000 INFO @ Sat, 15 Jan 2022 20:55:08: 2000000 INFO @ Sat, 15 Jan 2022 20:55:12: 3000000 INFO @ Sat, 15 Jan 2022 20:55:17: 4000000 INFO @ Sat, 15 Jan 2022 20:55:21: 5000000 INFO @ Sat, 15 Jan 2022 20:55:26: 6000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 20:55:27: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 20:55:27: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 20:55:27: #1 total tags in treatment: 3069766 INFO @ Sat, 15 Jan 2022 20:55:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:55:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 20:55:27: #1 tags after filtering in treatment: 2672739 INFO @ Sat, 15 Jan 2022 20:55:27: #1 Redundant rate of treatment: 0.13 INFO @ Sat, 15 Jan 2022 20:55:27: #1 finished! INFO @ Sat, 15 Jan 2022 20:55:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:55:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:55:27: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 20:55:27: Too few paired peaks (29) 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 @ Sat, 15 Jan 2022 20:55:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.05_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/SRX10468555/SRX10468555.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:55:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.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 @ Sat, 15 Jan 2022 20:55:28: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:55:28: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:55:33: 1000000 INFO @ Sat, 15 Jan 2022 20:55:38: 2000000 INFO @ Sat, 15 Jan 2022 20:55:43: 3000000 INFO @ Sat, 15 Jan 2022 20:55:47: 4000000 INFO @ Sat, 15 Jan 2022 20:55:52: 5000000 INFO @ Sat, 15 Jan 2022 20:55:56: 6000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 20:55:58: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 20:55:58: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 20:55:58: #1 total tags in treatment: 3069766 INFO @ Sat, 15 Jan 2022 20:55:58: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:55:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 20:55:58: #1 tags after filtering in treatment: 2672739 INFO @ Sat, 15 Jan 2022 20:55:58: #1 Redundant rate of treatment: 0.13 INFO @ Sat, 15 Jan 2022 20:55:58: #1 finished! INFO @ Sat, 15 Jan 2022 20:55:58: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:55:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:55:58: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 20:55:58: Too few paired peaks (29) 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 @ Sat, 15 Jan 2022 20:55:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.10_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/SRX10468555/SRX10468555.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:55:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.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 @ Sat, 15 Jan 2022 20:55:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:55:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:56:03: 1000000 INFO @ Sat, 15 Jan 2022 20:56:08: 2000000 INFO @ Sat, 15 Jan 2022 20:56:12: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:56:17: 4000000 INFO @ Sat, 15 Jan 2022 20:56:21: 5000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:56:26: 6000000 INFO @ Sat, 15 Jan 2022 20:56:27: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 20:56:27: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 20:56:27: #1 total tags in treatment: 3069766 INFO @ Sat, 15 Jan 2022 20:56:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:56:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 20:56:27: #1 tags after filtering in treatment: 2672739 INFO @ Sat, 15 Jan 2022 20:56:27: #1 Redundant rate of treatment: 0.13 INFO @ Sat, 15 Jan 2022 20:56:27: #1 finished! INFO @ Sat, 15 Jan 2022 20:56:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:56:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:56:27: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 20:56:27: Too few paired peaks (29) 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 @ Sat, 15 Jan 2022 20:56:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.20_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/SRX10468555/SRX10468555.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468555/SRX10468555.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling