Job ID = 16436849 SRX = SRX8948328 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Rejected 44010 READS because READLEN < 1 Read 3093991 spots for SRR12453885/SRR12453885.sra Written 3093991 spots for SRR12453885/SRR12453885.sra fastq に変換しました。 bowtie でマッピング中... Your job 16436961 ("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_rmdup_core] processing reference chr2L... [bam_rmdup_core] 2 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] 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] 178264 / 2986254 = 0.0597 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 12:05:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.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 12:05:23: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:05:23: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:05:29: 1000000 INFO @ Tue, 02 Aug 2022 12:05:34: 2000000 INFO @ Tue, 02 Aug 2022 12:05:40: 3000000 INFO @ Tue, 02 Aug 2022 12:05:45: 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 12:05:51: 5000000 INFO @ Tue, 02 Aug 2022 12:05:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.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 12:05:52: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:05:52: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:05:55: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 12:05:55: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 12:05:55: #1 total tags in treatment: 2790462 INFO @ Tue, 02 Aug 2022 12:05:55: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:05:55: #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 12:05:55: #1 tags after filtering in treatment: 2688064 INFO @ Tue, 02 Aug 2022 12:05:55: #1 Redundant rate of treatment: 0.04 INFO @ Tue, 02 Aug 2022 12:05:55: #1 finished! INFO @ Tue, 02 Aug 2022 12:05:55: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:05:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:05:55: #2 number of paired peaks: 16 WARNING @ Tue, 02 Aug 2022 12:05:55: Too few paired peaks (16) 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 12:05:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 12:05:57: 1000000 INFO @ Tue, 02 Aug 2022 12:06:01: 2000000 INFO @ Tue, 02 Aug 2022 12:06:06: 3000000 INFO @ Tue, 02 Aug 2022 12:06:10: 4000000 INFO @ Tue, 02 Aug 2022 12:06:14: 5000000 INFO @ Tue, 02 Aug 2022 12:06:17: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 12:06:17: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 12:06:17: #1 total tags in treatment: 2790462 INFO @ Tue, 02 Aug 2022 12:06:17: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:06:17: #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 12:06:17: #1 tags after filtering in treatment: 2688064 INFO @ Tue, 02 Aug 2022 12:06:17: #1 Redundant rate of treatment: 0.04 INFO @ Tue, 02 Aug 2022 12:06:17: #1 finished! INFO @ Tue, 02 Aug 2022 12:06:17: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:06:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:06:18: #2 number of paired peaks: 16 WARNING @ Tue, 02 Aug 2022 12:06:18: Too few paired peaks (16) 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 12:06:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.10_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/SRX8948328/SRX8948328.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 12:06:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.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 12:06:22: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:06:22: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:06:26: 1000000 INFO @ Tue, 02 Aug 2022 12:06:30: 2000000 INFO @ Tue, 02 Aug 2022 12:06:35: 3000000 INFO @ Tue, 02 Aug 2022 12:06:39: 4000000 INFO @ Tue, 02 Aug 2022 12:06:43: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 12:06:47: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 12:06:47: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 12:06:47: #1 total tags in treatment: 2790462 INFO @ Tue, 02 Aug 2022 12:06:47: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:06:47: #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 12:06:47: #1 tags after filtering in treatment: 2688064 INFO @ Tue, 02 Aug 2022 12:06:47: #1 Redundant rate of treatment: 0.04 INFO @ Tue, 02 Aug 2022 12:06:47: #1 finished! INFO @ Tue, 02 Aug 2022 12:06:47: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:06:47: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:06:47: #2 number of paired peaks: 16 WARNING @ Tue, 02 Aug 2022 12:06:47: Too few paired peaks (16) 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 12:06:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.20_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/SRX8948328/SRX8948328.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX8948328/SRX8948328.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。