Job ID = 14167173 SRX = SRX10340473 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Rejected 1680668 READS because READLEN < 1 Read 16322798 spots for SRR13962482/SRR13962482.sra Written 16322798 spots for SRR13962482/SRR13962482.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167783 ("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 20 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] 4 unmatched pairs [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] 6 unmatched pairs [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] 10 unmatched pairs [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] 3 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] 1 unmatched pairs [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] 10 unmatched pairs [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 2201217 / 13412485 = 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 11:24:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.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 @ Fri, 10 Dec 2021 11:24:22: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:24:22: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:24:32: 1000000 INFO @ Fri, 10 Dec 2021 11:24:43: 2000000 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 @ Fri, 10 Dec 2021 11:24:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.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 @ Fri, 10 Dec 2021 11:24:52: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:24:52: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:24:53: 3000000 INFO @ Fri, 10 Dec 2021 11:25:03: 1000000 INFO @ Fri, 10 Dec 2021 11:25:05: 4000000 INFO @ Fri, 10 Dec 2021 11:25:13: 2000000 INFO @ Fri, 10 Dec 2021 11:25:17: 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 @ Fri, 10 Dec 2021 11:25:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.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 @ Fri, 10 Dec 2021 11:25:22: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:25:22: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:25:24: 3000000 INFO @ Fri, 10 Dec 2021 11:25:29: 6000000 INFO @ Fri, 10 Dec 2021 11:25:33: 1000000 INFO @ Fri, 10 Dec 2021 11:25:35: 4000000 INFO @ Fri, 10 Dec 2021 11:25:41: 7000000 INFO @ Fri, 10 Dec 2021 11:25:44: 2000000 INFO @ Fri, 10 Dec 2021 11:25:46: 5000000 INFO @ Fri, 10 Dec 2021 11:25:53: 8000000 INFO @ Fri, 10 Dec 2021 11:25:55: 3000000 INFO @ Fri, 10 Dec 2021 11:25:57: 6000000 INFO @ Fri, 10 Dec 2021 11:26:05: 9000000 INFO @ Fri, 10 Dec 2021 11:26:07: 4000000 INFO @ Fri, 10 Dec 2021 11:26:09: 7000000 INFO @ Fri, 10 Dec 2021 11:26:17: 10000000 INFO @ Fri, 10 Dec 2021 11:26:18: 5000000 INFO @ Fri, 10 Dec 2021 11:26:20: 8000000 INFO @ Fri, 10 Dec 2021 11:26:29: 6000000 INFO @ Fri, 10 Dec 2021 11:26:29: 11000000 INFO @ Fri, 10 Dec 2021 11:26:31: 9000000 INFO @ Fri, 10 Dec 2021 11:26:40: 7000000 INFO @ Fri, 10 Dec 2021 11:26:41: 12000000 INFO @ Fri, 10 Dec 2021 11:26:42: 10000000 INFO @ Fri, 10 Dec 2021 11:26:51: 8000000 INFO @ Fri, 10 Dec 2021 11:26:53: 13000000 INFO @ Fri, 10 Dec 2021 11:26:53: 11000000 INFO @ Fri, 10 Dec 2021 11:27:02: 9000000 INFO @ Fri, 10 Dec 2021 11:27:04: 12000000 INFO @ Fri, 10 Dec 2021 11:27:04: 14000000 INFO @ Fri, 10 Dec 2021 11:27:13: 10000000 INFO @ Fri, 10 Dec 2021 11:27:15: 13000000 INFO @ Fri, 10 Dec 2021 11:27:17: 15000000 INFO @ Fri, 10 Dec 2021 11:27:24: 11000000 INFO @ Fri, 10 Dec 2021 11:27:26: 14000000 INFO @ Fri, 10 Dec 2021 11:27:29: 16000000 INFO @ Fri, 10 Dec 2021 11:27:35: 12000000 INFO @ Fri, 10 Dec 2021 11:27:37: 15000000 INFO @ Fri, 10 Dec 2021 11:27:40: 17000000 INFO @ Fri, 10 Dec 2021 11:27:46: 13000000 INFO @ Fri, 10 Dec 2021 11:27:48: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 11:27:52: 18000000 INFO @ Fri, 10 Dec 2021 11:27:57: 14000000 INFO @ Fri, 10 Dec 2021 11:27:59: 17000000 INFO @ Fri, 10 Dec 2021 11:28:04: 19000000 INFO @ Fri, 10 Dec 2021 11:28:08: 15000000 INFO @ Fri, 10 Dec 2021 11:28:10: 18000000 INFO @ Fri, 10 Dec 2021 11:28:16: 20000000 INFO @ Fri, 10 Dec 2021 11:28:19: 16000000 INFO @ Fri, 10 Dec 2021 11:28:21: 19000000 INFO @ Fri, 10 Dec 2021 11:28:28: 21000000 INFO @ Fri, 10 Dec 2021 11:28:30: 17000000 INFO @ Fri, 10 Dec 2021 11:28:32: 20000000 INFO @ Fri, 10 Dec 2021 11:28:40: 22000000 INFO @ Fri, 10 Dec 2021 11:28:41: 18000000 INFO @ Fri, 10 Dec 2021 11:28:43: 21000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 11:28:52: 23000000 INFO @ Fri, 10 Dec 2021 11:28:52: 19000000 INFO @ Fri, 10 Dec 2021 11:28:54: 22000000 INFO @ Fri, 10 Dec 2021 11:29:03: 20000000 INFO @ Fri, 10 Dec 2021 11:29:04: 24000000 INFO @ Fri, 10 Dec 2021 11:29:05: 23000000 INFO @ Fri, 10 Dec 2021 11:29:06: #1 tag size is determined as 122 bps INFO @ Fri, 10 Dec 2021 11:29:06: #1 tag size = 122 INFO @ Fri, 10 Dec 2021 11:29:06: #1 total tags in treatment: 10729915 INFO @ Fri, 10 Dec 2021 11:29:06: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:29:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 11:29:06: #1 tags after filtering in treatment: 10357652 INFO @ Fri, 10 Dec 2021 11:29:06: #1 Redundant rate of treatment: 0.03 INFO @ Fri, 10 Dec 2021 11:29:06: #1 finished! INFO @ Fri, 10 Dec 2021 11:29:06: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:29:06: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:29:07: #2 number of paired peaks: 70 WARNING @ Fri, 10 Dec 2021 11:29:07: Too few paired peaks (70) 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 @ Fri, 10 Dec 2021 11:29:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.05_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/SRX10340473/SRX10340473.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 11:29:13: 21000000 INFO @ Fri, 10 Dec 2021 11:29:15: 24000000 INFO @ Fri, 10 Dec 2021 11:29:18: #1 tag size is determined as 122 bps INFO @ Fri, 10 Dec 2021 11:29:18: #1 tag size = 122 INFO @ Fri, 10 Dec 2021 11:29:18: #1 total tags in treatment: 10729915 INFO @ Fri, 10 Dec 2021 11:29:18: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:29:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 11:29:18: #1 tags after filtering in treatment: 10357652 INFO @ Fri, 10 Dec 2021 11:29:18: #1 Redundant rate of treatment: 0.03 INFO @ Fri, 10 Dec 2021 11:29:18: #1 finished! INFO @ Fri, 10 Dec 2021 11:29:18: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:29:18: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:29:18: #2 number of paired peaks: 70 WARNING @ Fri, 10 Dec 2021 11:29:18: Too few paired peaks (70) 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 @ Fri, 10 Dec 2021 11:29:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.10_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/SRX10340473/SRX10340473.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 11:29:23: 22000000 INFO @ Fri, 10 Dec 2021 11:29:31: 23000000 INFO @ Fri, 10 Dec 2021 11:29:39: 24000000 INFO @ Fri, 10 Dec 2021 11:29:41: #1 tag size is determined as 122 bps INFO @ Fri, 10 Dec 2021 11:29:41: #1 tag size = 122 INFO @ Fri, 10 Dec 2021 11:29:41: #1 total tags in treatment: 10729915 INFO @ Fri, 10 Dec 2021 11:29:41: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:29:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 11:29:41: #1 tags after filtering in treatment: 10357652 INFO @ Fri, 10 Dec 2021 11:29:41: #1 Redundant rate of treatment: 0.03 INFO @ Fri, 10 Dec 2021 11:29:41: #1 finished! INFO @ Fri, 10 Dec 2021 11:29:41: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:29:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:29:42: #2 number of paired peaks: 70 WARNING @ Fri, 10 Dec 2021 11:29:42: Too few paired peaks (70) 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 @ Fri, 10 Dec 2021 11:29:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.20_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/dm3/SRX10340473/SRX10340473.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX10340473/SRX10340473.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling