Job ID = 14521378 SRX = SRX7825259 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Rejected 1538 READS because READLEN < 1 Read 21683779 spots for SRR11212322/SRR11212322.sra Written 21683779 spots for SRR11212322/SRR11212322.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 Error, fewer reads in file specified with -2 than in file specified with -1 terminate called after throwing an instance of 'int' (ERR): bowtie2-align died with signal 6 (ABRT) (core dumped) 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 24 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] 4284787 / 15149758 = 0.2828 in library ' ' awk: cmd. line:1: (FILENAME=- FNR=1) fatal: division by zero attempted 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 21:25:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.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 21:25:06: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:25:06: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:25:15: 1000000 INFO @ Sat, 15 Jan 2022 21:25:23: 2000000 INFO @ Sat, 15 Jan 2022 21:25:32: 3000000 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 21:25:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.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 21:25:36: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:25:36: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:25:41: 4000000 INFO @ Sat, 15 Jan 2022 21:25:45: 1000000 INFO @ Sat, 15 Jan 2022 21:25:50: 5000000 INFO @ Sat, 15 Jan 2022 21:25:53: 2000000 INFO @ Sat, 15 Jan 2022 21:26:00: 6000000 INFO @ Sat, 15 Jan 2022 21:26:01: 3000000 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 21:26:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.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 21:26:06: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:26:06: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:26:09: 7000000 INFO @ Sat, 15 Jan 2022 21:26:10: 4000000 INFO @ Sat, 15 Jan 2022 21:26:16: 1000000 INFO @ Sat, 15 Jan 2022 21:26:18: 5000000 INFO @ Sat, 15 Jan 2022 21:26:19: 8000000 INFO @ Sat, 15 Jan 2022 21:26:25: 2000000 INFO @ Sat, 15 Jan 2022 21:26:27: 6000000 INFO @ Sat, 15 Jan 2022 21:26:28: 9000000 INFO @ Sat, 15 Jan 2022 21:26:35: 3000000 INFO @ Sat, 15 Jan 2022 21:26:35: 7000000 INFO @ Sat, 15 Jan 2022 21:26:37: 10000000 INFO @ Sat, 15 Jan 2022 21:26:44: 8000000 INFO @ Sat, 15 Jan 2022 21:26:44: 4000000 INFO @ Sat, 15 Jan 2022 21:26:47: 11000000 INFO @ Sat, 15 Jan 2022 21:26:53: 9000000 INFO @ Sat, 15 Jan 2022 21:26:54: 5000000 INFO @ Sat, 15 Jan 2022 21:26:56: 12000000 INFO @ Sat, 15 Jan 2022 21:27:01: 10000000 INFO @ Sat, 15 Jan 2022 21:27:03: 6000000 INFO @ Sat, 15 Jan 2022 21:27:06: 13000000 INFO @ Sat, 15 Jan 2022 21:27:10: 11000000 INFO @ Sat, 15 Jan 2022 21:27:13: 7000000 INFO @ Sat, 15 Jan 2022 21:27:15: 14000000 INFO @ Sat, 15 Jan 2022 21:27:18: 12000000 INFO @ Sat, 15 Jan 2022 21:27:22: 8000000 INFO @ Sat, 15 Jan 2022 21:27:25: 15000000 INFO @ Sat, 15 Jan 2022 21:27:27: 13000000 INFO @ Sat, 15 Jan 2022 21:27:32: 9000000 INFO @ Sat, 15 Jan 2022 21:27:34: 16000000 INFO @ Sat, 15 Jan 2022 21:27:35: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:27:42: 10000000 INFO @ Sat, 15 Jan 2022 21:27:43: 15000000 INFO @ Sat, 15 Jan 2022 21:27:44: 17000000 INFO @ Sat, 15 Jan 2022 21:27:51: 11000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:27:52: 16000000 INFO @ Sat, 15 Jan 2022 21:27:53: 18000000 INFO @ Sat, 15 Jan 2022 21:28:00: 17000000 INFO @ Sat, 15 Jan 2022 21:28:01: 12000000 INFO @ Sat, 15 Jan 2022 21:28:03: 19000000 INFO @ Sat, 15 Jan 2022 21:28:09: 18000000 INFO @ Sat, 15 Jan 2022 21:28:10: 13000000 INFO @ Sat, 15 Jan 2022 21:28:12: 20000000 INFO @ Sat, 15 Jan 2022 21:28:17: 19000000 INFO @ Sat, 15 Jan 2022 21:28:20: 14000000 INFO @ Sat, 15 Jan 2022 21:28:22: 21000000 INFO @ Sat, 15 Jan 2022 21:28:26: 20000000 INFO @ Sat, 15 Jan 2022 21:28:29: 15000000 INFO @ Sat, 15 Jan 2022 21:28:30: #1 tag size is determined as 118 bps INFO @ Sat, 15 Jan 2022 21:28:30: #1 tag size = 118 INFO @ Sat, 15 Jan 2022 21:28:30: #1 total tags in treatment: 10758287 INFO @ Sat, 15 Jan 2022 21:28:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:28:30: #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 21:28:31: #1 tags after filtering in treatment: 7399130 INFO @ Sat, 15 Jan 2022 21:28:31: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:28:31: #1 finished! INFO @ Sat, 15 Jan 2022 21:28:31: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:28:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:28:31: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:28:31: 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 21:28:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.05_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/SRX7825259/SRX7825259.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:28:34: 21000000 INFO @ Sat, 15 Jan 2022 21:28:39: 16000000 INFO @ Sat, 15 Jan 2022 21:28:42: #1 tag size is determined as 118 bps INFO @ Sat, 15 Jan 2022 21:28:42: #1 tag size = 118 INFO @ Sat, 15 Jan 2022 21:28:42: #1 total tags in treatment: 10758287 INFO @ Sat, 15 Jan 2022 21:28:42: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:28:42: #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 21:28:42: #1 tags after filtering in treatment: 7399130 INFO @ Sat, 15 Jan 2022 21:28:42: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:28:42: #1 finished! INFO @ Sat, 15 Jan 2022 21:28:42: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:28:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:28:43: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:28:43: 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 21:28:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.10_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/SRX7825259/SRX7825259.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:28:48: 17000000 INFO @ Sat, 15 Jan 2022 21:28:57: 18000000 INFO @ Sat, 15 Jan 2022 21:29:05: 19000000 INFO @ Sat, 15 Jan 2022 21:29:14: 20000000 INFO @ Sat, 15 Jan 2022 21:29:23: 21000000 INFO @ Sat, 15 Jan 2022 21:29:31: #1 tag size is determined as 118 bps INFO @ Sat, 15 Jan 2022 21:29:31: #1 tag size = 118 INFO @ Sat, 15 Jan 2022 21:29:31: #1 total tags in treatment: 10758287 INFO @ Sat, 15 Jan 2022 21:29:31: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:29:31: #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 21:29:31: #1 tags after filtering in treatment: 7399130 INFO @ Sat, 15 Jan 2022 21:29:31: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:29:31: #1 finished! INFO @ Sat, 15 Jan 2022 21:29:31: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:29:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:29:31: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:29:31: 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 21:29:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.20_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/SRX7825259/SRX7825259.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7825259/SRX7825259.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling