Job ID = 6528473 SRX = SRX7050432 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T15:08:20 prefetch.2.10.7: 1) Downloading 'SRR10340366'... 2020-06-29T15:08:20 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:12:48 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:12:48 prefetch.2.10.7: 1) 'SRR10340366' was downloaded successfully 2020-06-29T15:12:48 prefetch.2.10.7: 'SRR10340366' has 0 unresolved dependencies Rejected 1931595 READS because READLEN < 1 Read 14586689 spots for SRR10340366/SRR10340366.sra Written 14586689 spots for SRR10340366/SRR10340366.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: 15 sequences. [bam_sort_core] merging from 16 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] 1 unmatched pairs [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] 3 unmatched pairs [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] 3 unmatched pairs [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] 4 unmatched pairs [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] 2 unmatched pairs [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] 2 unmatched pairs [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 2103859 / 11530381 = 0.1825 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 01:05:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 01:05:18: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:05:18: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:05:26: 1000000 INFO @ Tue, 30 Jun 2020 01:05:34: 2000000 INFO @ Tue, 30 Jun 2020 01:05:42: 3000000 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 @ Tue, 30 Jun 2020 01:05:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 01:05:48: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:05:48: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:05:50: 4000000 INFO @ Tue, 30 Jun 2020 01:05:57: 1000000 INFO @ Tue, 30 Jun 2020 01:05:59: 5000000 INFO @ Tue, 30 Jun 2020 01:06:07: 2000000 INFO @ Tue, 30 Jun 2020 01:06:08: 6000000 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 @ Tue, 30 Jun 2020 01:06:16: 3000000 INFO @ Tue, 30 Jun 2020 01:06:17: 7000000 INFO @ Tue, 30 Jun 2020 01:06:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 01:06:18: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:06:18: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:06:26: 4000000 INFO @ Tue, 30 Jun 2020 01:06:27: 8000000 INFO @ Tue, 30 Jun 2020 01:06:27: 1000000 INFO @ Tue, 30 Jun 2020 01:06:35: 5000000 INFO @ Tue, 30 Jun 2020 01:06:36: 9000000 INFO @ Tue, 30 Jun 2020 01:06:37: 2000000 INFO @ Tue, 30 Jun 2020 01:06:44: 6000000 INFO @ Tue, 30 Jun 2020 01:06:46: 10000000 INFO @ Tue, 30 Jun 2020 01:06:46: 3000000 INFO @ Tue, 30 Jun 2020 01:06:54: 7000000 INFO @ Tue, 30 Jun 2020 01:06:55: 11000000 INFO @ Tue, 30 Jun 2020 01:06:55: 4000000 INFO @ Tue, 30 Jun 2020 01:07:03: 8000000 INFO @ Tue, 30 Jun 2020 01:07:04: 12000000 INFO @ Tue, 30 Jun 2020 01:07:04: 5000000 INFO @ Tue, 30 Jun 2020 01:07:13: 9000000 INFO @ Tue, 30 Jun 2020 01:07:13: 13000000 INFO @ Tue, 30 Jun 2020 01:07:14: 6000000 INFO @ Tue, 30 Jun 2020 01:07:22: 14000000 INFO @ Tue, 30 Jun 2020 01:07:22: 10000000 INFO @ Tue, 30 Jun 2020 01:07:23: 7000000 INFO @ Tue, 30 Jun 2020 01:07:31: 15000000 INFO @ Tue, 30 Jun 2020 01:07:31: 11000000 INFO @ Tue, 30 Jun 2020 01:07:32: 8000000 INFO @ Tue, 30 Jun 2020 01:07:40: 16000000 INFO @ Tue, 30 Jun 2020 01:07:41: 12000000 INFO @ Tue, 30 Jun 2020 01:07:41: 9000000 INFO @ Tue, 30 Jun 2020 01:07:49: 17000000 INFO @ Tue, 30 Jun 2020 01:07:50: 13000000 INFO @ Tue, 30 Jun 2020 01:07:50: 10000000 INFO @ Tue, 30 Jun 2020 01:07:59: 18000000 INFO @ Tue, 30 Jun 2020 01:07:59: 14000000 INFO @ Tue, 30 Jun 2020 01:08:00: 11000000 INFO @ Tue, 30 Jun 2020 01:08:08: 19000000 INFO @ Tue, 30 Jun 2020 01:08:08: 15000000 INFO @ Tue, 30 Jun 2020 01:08:09: 12000000 INFO @ Tue, 30 Jun 2020 01:08:17: 20000000 INFO @ Tue, 30 Jun 2020 01:08:18: 16000000 INFO @ Tue, 30 Jun 2020 01:08:18: 13000000 INFO @ Tue, 30 Jun 2020 01:08:23: #1 tag size is determined as 124 bps INFO @ Tue, 30 Jun 2020 01:08:23: #1 tag size = 124 INFO @ Tue, 30 Jun 2020 01:08:23: #1 total tags in treatment: 8951577 INFO @ Tue, 30 Jun 2020 01:08:23: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:08:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:08:24: #1 tags after filtering in treatment: 8350256 INFO @ Tue, 30 Jun 2020 01:08:24: #1 Redundant rate of treatment: 0.07 INFO @ Tue, 30 Jun 2020 01:08:24: #1 finished! INFO @ Tue, 30 Jun 2020 01:08:24: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:08:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:08:24: #2 number of paired peaks: 56 WARNING @ Tue, 30 Jun 2020 01:08:24: Too few paired peaks (56) 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 @ Tue, 30 Jun 2020 01:08:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.05_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/dm3/SRX7050432/SRX7050432.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:08:27: 14000000 INFO @ Tue, 30 Jun 2020 01:08:27: 17000000 INFO @ Tue, 30 Jun 2020 01:08:36: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:08:37: 18000000 INFO @ Tue, 30 Jun 2020 01:08:45: 16000000 INFO @ Tue, 30 Jun 2020 01:08:46: 19000000 INFO @ Tue, 30 Jun 2020 01:08:53: 17000000 INFO @ Tue, 30 Jun 2020 01:08:55: 20000000 INFO @ Tue, 30 Jun 2020 01:09:02: #1 tag size is determined as 124 bps INFO @ Tue, 30 Jun 2020 01:09:02: #1 tag size = 124 INFO @ Tue, 30 Jun 2020 01:09:02: #1 total tags in treatment: 8951577 INFO @ Tue, 30 Jun 2020 01:09:02: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:09:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:09:02: #1 tags after filtering in treatment: 8350256 INFO @ Tue, 30 Jun 2020 01:09:02: #1 Redundant rate of treatment: 0.07 INFO @ Tue, 30 Jun 2020 01:09:02: #1 finished! INFO @ Tue, 30 Jun 2020 01:09:02: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:09:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:09:03: #2 number of paired peaks: 56 WARNING @ Tue, 30 Jun 2020 01:09:03: Too few paired peaks (56) 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 @ Tue, 30 Jun 2020 01:09:03: Process for pairing-model is terminated! INFO @ Tue, 30 Jun 2020 01:09:03: 18000000 cut: /home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:09:11: 19000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 01:09:20: 20000000 INFO @ Tue, 30 Jun 2020 01:09:25: #1 tag size is determined as 124 bps INFO @ Tue, 30 Jun 2020 01:09:25: #1 tag size = 124 INFO @ Tue, 30 Jun 2020 01:09:25: #1 total tags in treatment: 8951577 INFO @ Tue, 30 Jun 2020 01:09:25: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:09:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:09:25: #1 tags after filtering in treatment: 8350256 INFO @ Tue, 30 Jun 2020 01:09:25: #1 Redundant rate of treatment: 0.07 INFO @ Tue, 30 Jun 2020 01:09:25: #1 finished! INFO @ Tue, 30 Jun 2020 01:09:25: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:09:25: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:09:26: #2 number of paired peaks: 56 WARNING @ Tue, 30 Jun 2020 01:09:26: Too few paired peaks (56) 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 @ Tue, 30 Jun 2020 01:09:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.20_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/dm3/SRX7050432/SRX7050432.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7050432/SRX7050432.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling