Job ID = 14521173 SRX = SRX10828624 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7275567 spots for SRR14480449/SRR14480449.sra Written 7275567 spots for SRR14480449/SRR14480449.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: 00:03:46 7275567 reads; of these: 7275567 (100.00%) were paired; of these: 1090044 (14.98%) aligned concordantly 0 times 4816664 (66.20%) aligned concordantly exactly 1 time 1368859 (18.81%) aligned concordantly >1 times ---- 1090044 pairs aligned concordantly 0 times; of these: 71078 (6.52%) aligned discordantly 1 time ---- 1018966 pairs aligned 0 times concordantly or discordantly; of these: 2037932 mates make up the pairs; of these: 1848254 (90.69%) aligned 0 times 126545 (6.21%) aligned exactly 1 time 63133 (3.10%) aligned >1 times 87.30% overall alignment rate Time searching: 00:03:46 Overall time: 00:03:46 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] 1806928 / 6241634 = 0.2895 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 20:40:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.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 20:40:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:40:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:40:31: 1000000 INFO @ Sat, 15 Jan 2022 20:40:35: 2000000 INFO @ Sat, 15 Jan 2022 20:40:39: 3000000 INFO @ Sat, 15 Jan 2022 20:40:44: 4000000 INFO @ Sat, 15 Jan 2022 20:40:48: 5000000 INFO @ Sat, 15 Jan 2022 20:40:52: 6000000 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 20:40:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.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 20:40:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:40:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:40:57: 7000000 INFO @ Sat, 15 Jan 2022 20:41:02: 8000000 INFO @ Sat, 15 Jan 2022 20:41:02: 1000000 INFO @ Sat, 15 Jan 2022 20:41:06: 9000000 INFO @ Sat, 15 Jan 2022 20:41:07: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:41:07: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:41:07: #1 total tags in treatment: 4387168 INFO @ Sat, 15 Jan 2022 20:41:07: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:41:07: #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 20:41:07: #1 tags after filtering in treatment: 2932275 INFO @ Sat, 15 Jan 2022 20:41:07: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 20:41:07: #1 finished! INFO @ Sat, 15 Jan 2022 20:41:07: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:41:07: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:41:07: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 20:41:07: Too few paired peaks (28) 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 20:41:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.05_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/SRX10828624/SRX10828624.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:41:08: 2000000 INFO @ Sat, 15 Jan 2022 20:41:13: 3000000 INFO @ Sat, 15 Jan 2022 20:41:19: 4000000 INFO @ Sat, 15 Jan 2022 20:41:24: 5000000 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 20:41:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.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 20:41:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:41:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:41:30: 6000000 INFO @ Sat, 15 Jan 2022 20:41:31: 1000000 INFO @ Sat, 15 Jan 2022 20:41:35: 7000000 INFO @ Sat, 15 Jan 2022 20:41:36: 2000000 INFO @ Sat, 15 Jan 2022 20:41:41: 3000000 INFO @ Sat, 15 Jan 2022 20:41:41: 8000000 INFO @ Sat, 15 Jan 2022 20:41:46: 4000000 INFO @ Sat, 15 Jan 2022 20:41:47: 9000000 INFO @ Sat, 15 Jan 2022 20:41:47: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:41:47: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:41:47: #1 total tags in treatment: 4387168 INFO @ Sat, 15 Jan 2022 20:41:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:41:47: #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 20:41:48: #1 tags after filtering in treatment: 2932275 INFO @ Sat, 15 Jan 2022 20:41:48: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 20:41:48: #1 finished! INFO @ Sat, 15 Jan 2022 20:41:48: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:41:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:41:48: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 20:41:48: Too few paired peaks (28) 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 20:41:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.10_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/SRX10828624/SRX10828624.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:41:51: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:41:55: 6000000 INFO @ Sat, 15 Jan 2022 20:42:00: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:42:04: 8000000 INFO @ Sat, 15 Jan 2022 20:42:08: 9000000 INFO @ Sat, 15 Jan 2022 20:42:09: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:42:09: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:42:09: #1 total tags in treatment: 4387168 INFO @ Sat, 15 Jan 2022 20:42:09: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:42:09: #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 20:42:09: #1 tags after filtering in treatment: 2932275 INFO @ Sat, 15 Jan 2022 20:42:09: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 20:42:09: #1 finished! INFO @ Sat, 15 Jan 2022 20:42:09: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:42:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:42:09: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 20:42:09: Too few paired peaks (28) 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 20:42:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.20_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/SRX10828624/SRX10828624.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828624/SRX10828624.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling