Job ID = 10223932 SRX = SRX7496383 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 10511174 spots for SRR10822994/SRR10822994.sra Written 10511174 spots for SRR10822994/SRR10822994.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: 00:03:58 10511174 reads; of these: 10511174 (100.00%) were paired; of these: 5438715 (51.74%) aligned concordantly 0 times 4453301 (42.37%) aligned concordantly exactly 1 time 619158 (5.89%) aligned concordantly >1 times ---- 5438715 pairs aligned concordantly 0 times; of these: 43906 (0.81%) aligned discordantly 1 time ---- 5394809 pairs aligned 0 times concordantly or discordantly; of these: 10789618 mates make up the pairs; of these: 5871364 (54.42%) aligned 0 times 4320139 (40.04%) aligned exactly 1 time 598115 (5.54%) aligned >1 times 72.07% overall alignment rate Time searching: 00:03:58 Overall time: 00:03:58 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 8 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] 319997 / 5109113 = 0.0626 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 @ Fri, 16 Oct 2020 08:59:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.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 @ Fri, 16 Oct 2020 08:59:46: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:59:46: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:59:51: 1000000 INFO @ Fri, 16 Oct 2020 08:59:57: 2000000 INFO @ Fri, 16 Oct 2020 09:00:02: 3000000 INFO @ Fri, 16 Oct 2020 09:00:07: 4000000 INFO @ Fri, 16 Oct 2020 09:00:12: 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 @ Fri, 16 Oct 2020 09:00:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.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 @ Fri, 16 Oct 2020 09:00:16: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:00:16: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:00:17: 6000000 INFO @ Fri, 16 Oct 2020 09:00:22: 1000000 INFO @ Fri, 16 Oct 2020 09:00:22: 7000000 INFO @ Fri, 16 Oct 2020 09:00:27: 2000000 INFO @ Fri, 16 Oct 2020 09:00:28: 8000000 INFO @ Fri, 16 Oct 2020 09:00:33: 3000000 INFO @ Fri, 16 Oct 2020 09:00:33: 9000000 INFO @ Fri, 16 Oct 2020 09:00:38: 4000000 INFO @ Fri, 16 Oct 2020 09:00:39: 10000000 INFO @ Fri, 16 Oct 2020 09:00:44: 5000000 INFO @ Fri, 16 Oct 2020 09:00:44: 11000000 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 @ Fri, 16 Oct 2020 09:00:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.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 @ Fri, 16 Oct 2020 09:00:46: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:00:46: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:00:50: 6000000 INFO @ Fri, 16 Oct 2020 09:00:50: 12000000 INFO @ Fri, 16 Oct 2020 09:00:52: 1000000 INFO @ Fri, 16 Oct 2020 09:00:55: 13000000 INFO @ Fri, 16 Oct 2020 09:00:56: 7000000 INFO @ Fri, 16 Oct 2020 09:00:57: 2000000 INFO @ Fri, 16 Oct 2020 09:01:01: 14000000 INFO @ Fri, 16 Oct 2020 09:01:02: 8000000 INFO @ Fri, 16 Oct 2020 09:01:02: 3000000 INFO @ Fri, 16 Oct 2020 09:01:04: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 09:01:04: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 09:01:04: #1 total tags in treatment: 4752744 INFO @ Fri, 16 Oct 2020 09:01:04: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:01:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:01:04: #1 tags after filtering in treatment: 2976813 INFO @ Fri, 16 Oct 2020 09:01:04: #1 Redundant rate of treatment: 0.37 INFO @ Fri, 16 Oct 2020 09:01:04: #1 finished! INFO @ Fri, 16 Oct 2020 09:01:04: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:01:04: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:01:04: #2 number of paired peaks: 36 WARNING @ Fri, 16 Oct 2020 09:01:04: Too few paired peaks (36) 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 @ Fri, 16 Oct 2020 09:01:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.05_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/SRX7496383/SRX7496383.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:01:07: 4000000 INFO @ Fri, 16 Oct 2020 09:01:07: 9000000 INFO @ Fri, 16 Oct 2020 09:01:12: 5000000 INFO @ Fri, 16 Oct 2020 09:01:13: 10000000 INFO @ Fri, 16 Oct 2020 09:01:17: 6000000 INFO @ Fri, 16 Oct 2020 09:01:18: 11000000 INFO @ Fri, 16 Oct 2020 09:01:22: 7000000 INFO @ Fri, 16 Oct 2020 09:01:23: 12000000 INFO @ Fri, 16 Oct 2020 09:01:27: 8000000 INFO @ Fri, 16 Oct 2020 09:01:28: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 09:01:32: 9000000 INFO @ Fri, 16 Oct 2020 09:01:33: 14000000 INFO @ Fri, 16 Oct 2020 09:01:36: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 09:01:36: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 09:01:36: #1 total tags in treatment: 4752744 INFO @ Fri, 16 Oct 2020 09:01:36: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:01:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:01:36: #1 tags after filtering in treatment: 2976813 INFO @ Fri, 16 Oct 2020 09:01:36: #1 Redundant rate of treatment: 0.37 INFO @ Fri, 16 Oct 2020 09:01:36: #1 finished! INFO @ Fri, 16 Oct 2020 09:01:36: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:01:36: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:01:36: #2 number of paired peaks: 36 WARNING @ Fri, 16 Oct 2020 09:01:36: Too few paired peaks (36) 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 @ Fri, 16 Oct 2020 09:01:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.10_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/SRX7496383/SRX7496383.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:01:37: 10000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 09:01:42: 11000000 INFO @ Fri, 16 Oct 2020 09:01:46: 12000000 INFO @ Fri, 16 Oct 2020 09:01:51: 13000000 INFO @ Fri, 16 Oct 2020 09:01:56: 14000000 INFO @ Fri, 16 Oct 2020 09:01:58: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 09:01:58: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 09:01:58: #1 total tags in treatment: 4752744 INFO @ Fri, 16 Oct 2020 09:01:58: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:01:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:01:58: #1 tags after filtering in treatment: 2976813 INFO @ Fri, 16 Oct 2020 09:01:58: #1 Redundant rate of treatment: 0.37 INFO @ Fri, 16 Oct 2020 09:01:58: #1 finished! INFO @ Fri, 16 Oct 2020 09:01:58: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:01:58: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:01:58: #2 number of paired peaks: 36 WARNING @ Fri, 16 Oct 2020 09:01:58: Too few paired peaks (36) 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 @ Fri, 16 Oct 2020 09:01:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.20_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/SRX7496383/SRX7496383.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496383/SRX7496383.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling