Job ID = 14521488 SRX = SRX10468488 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4034560 spots for SRR14094799/SRR14094799.sra Written 4034560 spots for SRR14094799/SRR14094799.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: 00:01:59 4034560 reads; of these: 4034560 (100.00%) were paired; of these: 574236 (14.23%) aligned concordantly 0 times 2954793 (73.24%) aligned concordantly exactly 1 time 505531 (12.53%) aligned concordantly >1 times ---- 574236 pairs aligned concordantly 0 times; of these: 45129 (7.86%) aligned discordantly 1 time ---- 529107 pairs aligned 0 times concordantly or discordantly; of these: 1058214 mates make up the pairs; of these: 972503 (91.90%) aligned 0 times 55211 (5.22%) aligned exactly 1 time 30500 (2.88%) aligned >1 times 87.95% overall alignment rate Time searching: 00:01:59 Overall time: 00:01:59 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] 55017 / 3463839 = 0.0159 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 21:08:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.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 21:08:27: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:08:27: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:08:33: 1000000 INFO @ Sat, 15 Jan 2022 21:08:38: 2000000 INFO @ Sat, 15 Jan 2022 21:08:44: 3000000 INFO @ Sat, 15 Jan 2022 21:08:49: 4000000 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 21:08:55: 5000000 INFO @ Sat, 15 Jan 2022 21:08:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.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 21:08:57: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:08:57: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:09:01: 6000000 INFO @ Sat, 15 Jan 2022 21:09:04: 1000000 INFO @ Sat, 15 Jan 2022 21:09:07: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:09:07: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:09:07: #1 total tags in treatment: 3405346 INFO @ Sat, 15 Jan 2022 21:09:07: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:09:07: #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 21:09:07: #1 tags after filtering in treatment: 2957112 INFO @ Sat, 15 Jan 2022 21:09:07: #1 Redundant rate of treatment: 0.13 INFO @ Sat, 15 Jan 2022 21:09:07: #1 finished! INFO @ Sat, 15 Jan 2022 21:09:07: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:09:07: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:09:07: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 21:09:07: Too few paired peaks (30) 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 21:09:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.05_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/SRX10468488/SRX10468488.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:09:11: 2000000 INFO @ Sat, 15 Jan 2022 21:09:18: 3000000 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 21:09:25: 4000000 INFO @ Sat, 15 Jan 2022 21:09:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.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 21:09:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:09:27: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:09:32: 5000000 INFO @ Sat, 15 Jan 2022 21:09:32: 1000000 INFO @ Sat, 15 Jan 2022 21:09:38: 2000000 INFO @ Sat, 15 Jan 2022 21:09:39: 6000000 INFO @ Sat, 15 Jan 2022 21:09:43: 3000000 INFO @ Sat, 15 Jan 2022 21:09:46: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:09:46: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:09:46: #1 total tags in treatment: 3405346 INFO @ Sat, 15 Jan 2022 21:09:46: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:09:46: #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 21:09:46: #1 tags after filtering in treatment: 2957112 INFO @ Sat, 15 Jan 2022 21:09:46: #1 Redundant rate of treatment: 0.13 INFO @ Sat, 15 Jan 2022 21:09:46: #1 finished! INFO @ Sat, 15 Jan 2022 21:09:46: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:09:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:09:46: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 21:09:46: Too few paired peaks (30) 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 21:09:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.10_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/SRX10468488/SRX10468488.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:09:49: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:09:54: 5000000 INFO @ Sat, 15 Jan 2022 21:09:59: 6000000 INFO @ Sat, 15 Jan 2022 21:10:04: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 21:10:04: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 21:10:04: #1 total tags in treatment: 3405346 INFO @ Sat, 15 Jan 2022 21:10:04: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:10:04: #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 21:10:04: #1 tags after filtering in treatment: 2957112 INFO @ Sat, 15 Jan 2022 21:10:04: #1 Redundant rate of treatment: 0.13 INFO @ Sat, 15 Jan 2022 21:10:04: #1 finished! INFO @ Sat, 15 Jan 2022 21:10:04: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:10:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:10:05: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 21:10:05: Too few paired peaks (30) 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 21:10:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.20_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/SRX10468488/SRX10468488.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468488/SRX10468488.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。