Job ID = 14520241 SRX = SRX9346313 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6965941 spots for SRR12880351/SRR12880351.sra Written 6965941 spots for SRR12880351/SRR12880351.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: 00:06:26 6965941 reads; of these: 6965941 (100.00%) were paired; of these: 172169 (2.47%) aligned concordantly 0 times 5860016 (84.12%) aligned concordantly exactly 1 time 933756 (13.40%) aligned concordantly >1 times ---- 172169 pairs aligned concordantly 0 times; of these: 8077 (4.69%) aligned discordantly 1 time ---- 164092 pairs aligned 0 times concordantly or discordantly; of these: 328184 mates make up the pairs; of these: 270070 (82.29%) aligned 0 times 46417 (14.14%) aligned exactly 1 time 11697 (3.56%) aligned >1 times 98.06% overall alignment rate Time searching: 00:06:26 Overall time: 00:06:26 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] 906111 / 6687720 = 0.1355 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 18:58:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.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 18:58:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:58:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:58:32: 1000000 INFO @ Sat, 15 Jan 2022 18:58:38: 2000000 INFO @ Sat, 15 Jan 2022 18:58:44: 3000000 INFO @ Sat, 15 Jan 2022 18:58:50: 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 18:58:55: 5000000 INFO @ Sat, 15 Jan 2022 18:58:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.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 18:58:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:58:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:59:01: 6000000 INFO @ Sat, 15 Jan 2022 18:59:02: 1000000 INFO @ Sat, 15 Jan 2022 18:59:07: 7000000 INFO @ Sat, 15 Jan 2022 18:59:07: 2000000 INFO @ Sat, 15 Jan 2022 18:59:13: 8000000 INFO @ Sat, 15 Jan 2022 18:59:13: 3000000 INFO @ Sat, 15 Jan 2022 18:59:19: 4000000 INFO @ Sat, 15 Jan 2022 18:59:19: 9000000 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 18:59:24: 5000000 INFO @ Sat, 15 Jan 2022 18:59:25: 10000000 INFO @ Sat, 15 Jan 2022 18:59:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.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 18:59:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:59:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:59:30: 6000000 INFO @ Sat, 15 Jan 2022 18:59:32: 11000000 INFO @ Sat, 15 Jan 2022 18:59:33: 1000000 INFO @ Sat, 15 Jan 2022 18:59:36: 7000000 INFO @ Sat, 15 Jan 2022 18:59:37: #1 tag size is determined as 98 bps INFO @ Sat, 15 Jan 2022 18:59:37: #1 tag size = 98 INFO @ Sat, 15 Jan 2022 18:59:37: #1 total tags in treatment: 5887679 INFO @ Sat, 15 Jan 2022 18:59:37: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:59:37: #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 18:59:37: #1 tags after filtering in treatment: 3635129 INFO @ Sat, 15 Jan 2022 18:59:37: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 15 Jan 2022 18:59:37: #1 finished! INFO @ Sat, 15 Jan 2022 18:59:37: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:59:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:59:37: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 18:59:37: Too few paired peaks (0) 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 18:59:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.05_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/SRX9346313/SRX9346313.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:59:39: 2000000 INFO @ Sat, 15 Jan 2022 18:59:42: 8000000 INFO @ Sat, 15 Jan 2022 18:59:46: 3000000 INFO @ Sat, 15 Jan 2022 18:59:48: 9000000 INFO @ Sat, 15 Jan 2022 18:59:53: 4000000 INFO @ Sat, 15 Jan 2022 18:59:55: 10000000 INFO @ Sat, 15 Jan 2022 19:00:00: 5000000 INFO @ Sat, 15 Jan 2022 19:00:00: 11000000 INFO @ Sat, 15 Jan 2022 19:00:05: #1 tag size is determined as 98 bps INFO @ Sat, 15 Jan 2022 19:00:05: #1 tag size = 98 INFO @ Sat, 15 Jan 2022 19:00:05: #1 total tags in treatment: 5887679 INFO @ Sat, 15 Jan 2022 19:00:05: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:00:05: #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 19:00:05: #1 tags after filtering in treatment: 3635129 INFO @ Sat, 15 Jan 2022 19:00:05: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 15 Jan 2022 19:00:05: #1 finished! INFO @ Sat, 15 Jan 2022 19:00:05: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:00:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:00:05: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:00:05: Too few paired peaks (0) 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 19:00:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.10_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/SRX9346313/SRX9346313.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:00:06: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:00:13: 7000000 INFO @ Sat, 15 Jan 2022 19:00:20: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:00:25: 9000000 INFO @ Sat, 15 Jan 2022 19:00:31: 10000000 INFO @ Sat, 15 Jan 2022 19:00:38: 11000000 INFO @ Sat, 15 Jan 2022 19:00:44: #1 tag size is determined as 98 bps INFO @ Sat, 15 Jan 2022 19:00:44: #1 tag size = 98 INFO @ Sat, 15 Jan 2022 19:00:44: #1 total tags in treatment: 5887679 INFO @ Sat, 15 Jan 2022 19:00:44: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:00:44: #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 19:00:44: #1 tags after filtering in treatment: 3635129 INFO @ Sat, 15 Jan 2022 19:00:44: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 15 Jan 2022 19:00:44: #1 finished! INFO @ Sat, 15 Jan 2022 19:00:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:00:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:00:44: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:00:44: Too few paired peaks (0) 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 19:00:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.20_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/SRX9346313/SRX9346313.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346313/SRX9346313.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling