Job ID = 14521295 SRX = SRX10468537 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6327066 spots for SRR14094848/SRR14094848.sra Written 6327066 spots for SRR14094848/SRR14094848.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: 00:02:26 6327066 reads; of these: 6327066 (100.00%) were paired; of these: 563354 (8.90%) aligned concordantly 0 times 5188188 (82.00%) aligned concordantly exactly 1 time 575524 (9.10%) aligned concordantly >1 times ---- 563354 pairs aligned concordantly 0 times; of these: 189063 (33.56%) aligned discordantly 1 time ---- 374291 pairs aligned 0 times concordantly or discordantly; of these: 748582 mates make up the pairs; of these: 585616 (78.23%) aligned 0 times 101821 (13.60%) aligned exactly 1 time 61145 (8.17%) aligned >1 times 95.37% overall alignment rate Time searching: 00:02:26 Overall time: 00:02:26 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_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] 231944 / 5792268 = 0.0400 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 20:52:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.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 20:52:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:52:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:52:58: 1000000 INFO @ Sat, 15 Jan 2022 20:53:01: 2000000 INFO @ Sat, 15 Jan 2022 20:53:05: 3000000 INFO @ Sat, 15 Jan 2022 20:53:09: 4000000 INFO @ Sat, 15 Jan 2022 20:53:12: 5000000 INFO @ Sat, 15 Jan 2022 20:53:16: 6000000 INFO @ Sat, 15 Jan 2022 20:53:20: 7000000 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 20:53:23: 8000000 INFO @ Sat, 15 Jan 2022 20:53:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.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 20:53:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:53:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:53:27: 9000000 INFO @ Sat, 15 Jan 2022 20:53:28: 1000000 INFO @ Sat, 15 Jan 2022 20:53:31: 10000000 INFO @ Sat, 15 Jan 2022 20:53:32: 2000000 INFO @ Sat, 15 Jan 2022 20:53:35: 11000000 INFO @ Sat, 15 Jan 2022 20:53:36: 3000000 INFO @ Sat, 15 Jan 2022 20:53:37: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 20:53:37: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 20:53:37: #1 total tags in treatment: 5532405 INFO @ Sat, 15 Jan 2022 20:53:37: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:53:37: #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 20:53:37: #1 tags after filtering in treatment: 4162189 INFO @ Sat, 15 Jan 2022 20:53:37: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 20:53:37: #1 finished! INFO @ Sat, 15 Jan 2022 20:53:37: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:53:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:53:37: #2 number of paired peaks: 82 WARNING @ Sat, 15 Jan 2022 20:53:37: Too few paired peaks (82) 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 20:53:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.05_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/SRX10468537/SRX10468537.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:53:40: 4000000 INFO @ Sat, 15 Jan 2022 20:53:43: 5000000 INFO @ Sat, 15 Jan 2022 20:53:47: 6000000 INFO @ Sat, 15 Jan 2022 20:53:51: 7000000 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 20:53:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.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 20:53:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:53:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:53:54: 8000000 INFO @ Sat, 15 Jan 2022 20:53:58: 9000000 INFO @ Sat, 15 Jan 2022 20:53:58: 1000000 INFO @ Sat, 15 Jan 2022 20:54:02: 10000000 INFO @ Sat, 15 Jan 2022 20:54:03: 2000000 INFO @ Sat, 15 Jan 2022 20:54:06: 11000000 INFO @ Sat, 15 Jan 2022 20:54:07: 3000000 INFO @ Sat, 15 Jan 2022 20:54:08: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 20:54:08: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 20:54:08: #1 total tags in treatment: 5532405 INFO @ Sat, 15 Jan 2022 20:54:08: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:54:08: #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 20:54:08: #1 tags after filtering in treatment: 4162189 INFO @ Sat, 15 Jan 2022 20:54:08: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 20:54:08: #1 finished! INFO @ Sat, 15 Jan 2022 20:54:08: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:54:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:54:08: #2 number of paired peaks: 82 WARNING @ Sat, 15 Jan 2022 20:54:08: Too few paired peaks (82) 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 20:54:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.10_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/SRX10468537/SRX10468537.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:54:11: 4000000 INFO @ Sat, 15 Jan 2022 20:54:15: 5000000 INFO @ Sat, 15 Jan 2022 20:54:19: 6000000 INFO @ Sat, 15 Jan 2022 20:54:23: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:54:27: 8000000 INFO @ Sat, 15 Jan 2022 20:54:31: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:54:36: 10000000 INFO @ Sat, 15 Jan 2022 20:54:40: 11000000 INFO @ Sat, 15 Jan 2022 20:54:42: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 20:54:42: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 20:54:42: #1 total tags in treatment: 5532405 INFO @ Sat, 15 Jan 2022 20:54:42: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:54:42: #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 20:54:42: #1 tags after filtering in treatment: 4162189 INFO @ Sat, 15 Jan 2022 20:54:42: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 20:54:42: #1 finished! INFO @ Sat, 15 Jan 2022 20:54:42: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:54:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:54:43: #2 number of paired peaks: 82 WARNING @ Sat, 15 Jan 2022 20:54:43: Too few paired peaks (82) 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 20:54:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.20_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/SRX10468537/SRX10468537.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468537/SRX10468537.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling