Job ID = 14521915 SRX = ERX4439595 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3199003 spots for ERR4501524/ERR4501524.sra Written 3199003 spots for ERR4501524/ERR4501524.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: 00:03:45 3199003 reads; of these: 3199003 (100.00%) were paired; of these: 841209 (26.30%) aligned concordantly 0 times 2016145 (63.02%) aligned concordantly exactly 1 time 341649 (10.68%) aligned concordantly >1 times ---- 841209 pairs aligned concordantly 0 times; of these: 391482 (46.54%) aligned discordantly 1 time ---- 449727 pairs aligned 0 times concordantly or discordantly; of these: 899454 mates make up the pairs; of these: 697464 (77.54%) aligned 0 times 55039 (6.12%) aligned exactly 1 time 146951 (16.34%) aligned >1 times 89.10% overall alignment rate Time searching: 00:03:45 Overall time: 00:03:45 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] 42960 / 2720885 = 0.0158 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 21:58:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.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 21:58:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:58:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:58:39: 1000000 INFO @ Sat, 15 Jan 2022 21:58:48: 2000000 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 21:58:57: 3000000 INFO @ Sat, 15 Jan 2022 21:58:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.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 21:58:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:58:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:59:07: 4000000 INFO @ Sat, 15 Jan 2022 21:59:09: 1000000 INFO @ Sat, 15 Jan 2022 21:59:16: 5000000 INFO @ Sat, 15 Jan 2022 21:59:18: 2000000 INFO @ Sat, 15 Jan 2022 21:59:23: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:59:23: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:59:23: #1 total tags in treatment: 2321228 INFO @ Sat, 15 Jan 2022 21:59:23: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:59:23: #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 21:59:23: #1 tags after filtering in treatment: 2036166 INFO @ Sat, 15 Jan 2022 21:59:23: #1 Redundant rate of treatment: 0.12 INFO @ Sat, 15 Jan 2022 21:59:23: #1 finished! INFO @ Sat, 15 Jan 2022 21:59:23: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:59:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:59:23: #2 number of paired peaks: 78 WARNING @ Sat, 15 Jan 2022 21:59:23: Too few paired peaks (78) 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 21:59:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.05_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/ERX4439595/ERX4439595.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 21:59:27: 3000000 INFO @ Sat, 15 Jan 2022 21:59:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.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 21:59:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:59:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:59:36: 4000000 INFO @ Sat, 15 Jan 2022 21:59:39: 1000000 INFO @ Sat, 15 Jan 2022 21:59:45: 5000000 INFO @ Sat, 15 Jan 2022 21:59:48: 2000000 INFO @ Sat, 15 Jan 2022 21:59:50: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:59:50: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:59:50: #1 total tags in treatment: 2321228 INFO @ Sat, 15 Jan 2022 21:59:50: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:59:50: #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 21:59:50: #1 tags after filtering in treatment: 2036166 INFO @ Sat, 15 Jan 2022 21:59:50: #1 Redundant rate of treatment: 0.12 INFO @ Sat, 15 Jan 2022 21:59:50: #1 finished! INFO @ Sat, 15 Jan 2022 21:59:50: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:59:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:59:50: #2 number of paired peaks: 78 WARNING @ Sat, 15 Jan 2022 21:59:50: Too few paired peaks (78) 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 21:59:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.10_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/ERX4439595/ERX4439595.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:59:57: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:00:05: 4000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:00:14: 5000000 INFO @ Sat, 15 Jan 2022 22:00:20: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 22:00:20: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 22:00:20: #1 total tags in treatment: 2321228 INFO @ Sat, 15 Jan 2022 22:00:20: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:00:20: #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 22:00:20: #1 tags after filtering in treatment: 2036166 INFO @ Sat, 15 Jan 2022 22:00:20: #1 Redundant rate of treatment: 0.12 INFO @ Sat, 15 Jan 2022 22:00:20: #1 finished! INFO @ Sat, 15 Jan 2022 22:00:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:00:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:00:20: #2 number of paired peaks: 78 WARNING @ Sat, 15 Jan 2022 22:00:20: Too few paired peaks (78) 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 22:00:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.20_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/ERX4439595/ERX4439595.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439595/ERX4439595.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling