Job ID = 16436798 SRX = SRX8948321 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Rejected 182207 READS because READLEN < 1 Read 15682722 spots for SRR12453878/SRR12453878.sra Written 15682722 spots for SRR12453878/SRR12453878.sra fastq に変換しました。 bowtie でマッピング中... Your job 16436959 ("srTdm6") has been submitted 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] 34 unmatched pairs [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] 31 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] 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] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 2492527 / 15191735 = 0.1641 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 12:08:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.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, 02 Aug 2022 12:08:38: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:08:38: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:08:43: 1000000 INFO @ Tue, 02 Aug 2022 12:08:49: 2000000 INFO @ Tue, 02 Aug 2022 12:08:54: 3000000 INFO @ Tue, 02 Aug 2022 12:09:00: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 12:09:06: 5000000 INFO @ Tue, 02 Aug 2022 12:09:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.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, 02 Aug 2022 12:09:07: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:09:07: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:09:12: 6000000 INFO @ Tue, 02 Aug 2022 12:09:13: 1000000 INFO @ Tue, 02 Aug 2022 12:09:18: 7000000 INFO @ Tue, 02 Aug 2022 12:09:18: 2000000 INFO @ Tue, 02 Aug 2022 12:09:24: 3000000 INFO @ Tue, 02 Aug 2022 12:09:24: 8000000 INFO @ Tue, 02 Aug 2022 12:09:29: 4000000 INFO @ Tue, 02 Aug 2022 12:09:30: 9000000 INFO @ Tue, 02 Aug 2022 12:09:35: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 12:09:36: 10000000 INFO @ Tue, 02 Aug 2022 12:09:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.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, 02 Aug 2022 12:09:37: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:09:37: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:09:40: 6000000 INFO @ Tue, 02 Aug 2022 12:09:43: 11000000 INFO @ Tue, 02 Aug 2022 12:09:44: 1000000 INFO @ Tue, 02 Aug 2022 12:09:46: 7000000 INFO @ Tue, 02 Aug 2022 12:09:49: 12000000 INFO @ Tue, 02 Aug 2022 12:09:50: 2000000 INFO @ Tue, 02 Aug 2022 12:09:52: 8000000 INFO @ Tue, 02 Aug 2022 12:09:56: 13000000 INFO @ Tue, 02 Aug 2022 12:09:57: 3000000 INFO @ Tue, 02 Aug 2022 12:09:58: 9000000 INFO @ Tue, 02 Aug 2022 12:10:02: 14000000 INFO @ Tue, 02 Aug 2022 12:10:03: 4000000 INFO @ Tue, 02 Aug 2022 12:10:04: 10000000 INFO @ Tue, 02 Aug 2022 12:10:09: 15000000 INFO @ Tue, 02 Aug 2022 12:10:10: 5000000 INFO @ Tue, 02 Aug 2022 12:10:10: 11000000 INFO @ Tue, 02 Aug 2022 12:10:16: 16000000 INFO @ Tue, 02 Aug 2022 12:10:16: 12000000 INFO @ Tue, 02 Aug 2022 12:10:16: 6000000 INFO @ Tue, 02 Aug 2022 12:10:22: 13000000 INFO @ Tue, 02 Aug 2022 12:10:22: 17000000 INFO @ Tue, 02 Aug 2022 12:10:23: 7000000 INFO @ Tue, 02 Aug 2022 12:10:28: 14000000 INFO @ Tue, 02 Aug 2022 12:10:28: 18000000 INFO @ Tue, 02 Aug 2022 12:10:29: 8000000 INFO @ Tue, 02 Aug 2022 12:10:34: 15000000 INFO @ Tue, 02 Aug 2022 12:10:35: 19000000 INFO @ Tue, 02 Aug 2022 12:10:36: 9000000 INFO @ Tue, 02 Aug 2022 12:10:40: 16000000 INFO @ Tue, 02 Aug 2022 12:10:42: 20000000 INFO @ Tue, 02 Aug 2022 12:10:42: 10000000 INFO @ Tue, 02 Aug 2022 12:10:45: 17000000 INFO @ Tue, 02 Aug 2022 12:10:48: 21000000 INFO @ Tue, 02 Aug 2022 12:10:49: 11000000 INFO @ Tue, 02 Aug 2022 12:10:51: 18000000 INFO @ Tue, 02 Aug 2022 12:10:55: 22000000 INFO @ Tue, 02 Aug 2022 12:10:55: 12000000 INFO @ Tue, 02 Aug 2022 12:10:57: 19000000 INFO @ Tue, 02 Aug 2022 12:11:01: 23000000 INFO @ Tue, 02 Aug 2022 12:11:02: 13000000 INFO @ Tue, 02 Aug 2022 12:11:03: 20000000 INFO @ Tue, 02 Aug 2022 12:11:07: 24000000 INFO @ Tue, 02 Aug 2022 12:11:08: 14000000 INFO @ Tue, 02 Aug 2022 12:11:09: 21000000 INFO @ Tue, 02 Aug 2022 12:11:13: 25000000 INFO @ Tue, 02 Aug 2022 12:11:15: 15000000 INFO @ Tue, 02 Aug 2022 12:11:15: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 12:11:18: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 12:11:18: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 12:11:18: #1 total tags in treatment: 12624287 INFO @ Tue, 02 Aug 2022 12:11:18: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:11:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 12:11:18: #1 tags after filtering in treatment: 10724506 INFO @ Tue, 02 Aug 2022 12:11:18: #1 Redundant rate of treatment: 0.15 INFO @ Tue, 02 Aug 2022 12:11:18: #1 finished! INFO @ Tue, 02 Aug 2022 12:11:18: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:11:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:11:19: #2 number of paired peaks: 15 WARNING @ Tue, 02 Aug 2022 12:11:19: Too few paired peaks (15) 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, 02 Aug 2022 12:11:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.05_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/dm3/SRX8948321/SRX8948321.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 12:11:21: 23000000 INFO @ Tue, 02 Aug 2022 12:11:21: 16000000 INFO @ Tue, 02 Aug 2022 12:11:27: 24000000 INFO @ Tue, 02 Aug 2022 12:11:27: 17000000 INFO @ Tue, 02 Aug 2022 12:11:33: 25000000 INFO @ Tue, 02 Aug 2022 12:11:34: 18000000 INFO @ Tue, 02 Aug 2022 12:11:38: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 12:11:38: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 12:11:38: #1 total tags in treatment: 12624287 INFO @ Tue, 02 Aug 2022 12:11:38: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:11:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 12:11:38: #1 tags after filtering in treatment: 10724506 INFO @ Tue, 02 Aug 2022 12:11:38: #1 Redundant rate of treatment: 0.15 INFO @ Tue, 02 Aug 2022 12:11:38: #1 finished! INFO @ Tue, 02 Aug 2022 12:11:38: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:11:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:11:38: #2 number of paired peaks: 15 WARNING @ Tue, 02 Aug 2022 12:11:38: Too few paired peaks (15) 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, 02 Aug 2022 12:11:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.10_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/dm3/SRX8948321/SRX8948321.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 12:11:40: 19000000 INFO @ Tue, 02 Aug 2022 12:11:46: 20000000 INFO @ Tue, 02 Aug 2022 12:11:52: 21000000 INFO @ Tue, 02 Aug 2022 12:11:58: 22000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 12:12:04: 23000000 INFO @ Tue, 02 Aug 2022 12:12:10: 24000000 INFO @ Tue, 02 Aug 2022 12:12:16: 25000000 INFO @ Tue, 02 Aug 2022 12:12:21: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 12:12:21: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 12:12:21: #1 total tags in treatment: 12624287 INFO @ Tue, 02 Aug 2022 12:12:21: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:12:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 12:12:21: #1 tags after filtering in treatment: 10724506 INFO @ Tue, 02 Aug 2022 12:12:21: #1 Redundant rate of treatment: 0.15 INFO @ Tue, 02 Aug 2022 12:12:21: #1 finished! INFO @ Tue, 02 Aug 2022 12:12:21: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:12:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:12:22: #2 number of paired peaks: 15 WARNING @ Tue, 02 Aug 2022 12:12:22: Too few paired peaks (15) 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, 02 Aug 2022 12:12:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.20_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/SRX8948321/SRX8948321.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8948321/SRX8948321.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling