Job ID = 10223925 SRX = SRX4623315 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 10089293 spots for SRR7767720/SRR7767720.sra Written 10089293 spots for SRR7767720/SRR7767720.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 Multiseed full-index search: 00:03:52 10089293 reads; of these: 10089293 (100.00%) were paired; of these: 478188 (4.74%) aligned concordantly 0 times 8227919 (81.55%) aligned concordantly exactly 1 time 1383186 (13.71%) aligned concordantly >1 times ---- 478188 pairs aligned concordantly 0 times; of these: 43022 (9.00%) aligned discordantly 1 time ---- 435166 pairs aligned 0 times concordantly or discordantly; of these: 870332 mates make up the pairs; of these: 741435 (85.19%) aligned 0 times 90102 (10.35%) aligned exactly 1 time 38795 (4.46%) aligned >1 times 96.33% overall alignment rate Time searching: 00:03:52 Overall time: 00:03:52 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 8 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] 194674 / 9619063 = 0.0202 in library ' ' 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 @ Fri, 16 Oct 2020 08:56:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.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 @ Fri, 16 Oct 2020 08:56:29: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:56:29: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:56:33: 1000000 INFO @ Fri, 16 Oct 2020 08:56:37: 2000000 INFO @ Fri, 16 Oct 2020 08:56:41: 3000000 INFO @ Fri, 16 Oct 2020 08:56:45: 4000000 INFO @ Fri, 16 Oct 2020 08:56:49: 5000000 INFO @ Fri, 16 Oct 2020 08:56:52: 6000000 INFO @ Fri, 16 Oct 2020 08:56:56: 7000000 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 @ Fri, 16 Oct 2020 08:56:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.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 @ Fri, 16 Oct 2020 08:56:59: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:56:59: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:57:00: 8000000 INFO @ Fri, 16 Oct 2020 08:57:03: 1000000 INFO @ Fri, 16 Oct 2020 08:57:04: 9000000 INFO @ Fri, 16 Oct 2020 08:57:07: 2000000 INFO @ Fri, 16 Oct 2020 08:57:08: 10000000 INFO @ Fri, 16 Oct 2020 08:57:11: 3000000 INFO @ Fri, 16 Oct 2020 08:57:12: 11000000 INFO @ Fri, 16 Oct 2020 08:57:15: 4000000 INFO @ Fri, 16 Oct 2020 08:57:16: 12000000 INFO @ Fri, 16 Oct 2020 08:57:19: 5000000 INFO @ Fri, 16 Oct 2020 08:57:20: 13000000 INFO @ Fri, 16 Oct 2020 08:57:23: 6000000 INFO @ Fri, 16 Oct 2020 08:57:24: 14000000 INFO @ Fri, 16 Oct 2020 08:57:27: 7000000 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 @ Fri, 16 Oct 2020 08:57:28: 15000000 INFO @ Fri, 16 Oct 2020 08:57:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.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 @ Fri, 16 Oct 2020 08:57:29: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:57:29: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:57:31: 8000000 INFO @ Fri, 16 Oct 2020 08:57:32: 16000000 INFO @ Fri, 16 Oct 2020 08:57:33: 1000000 INFO @ Fri, 16 Oct 2020 08:57:35: 9000000 INFO @ Fri, 16 Oct 2020 08:57:36: 17000000 INFO @ Fri, 16 Oct 2020 08:57:37: 2000000 INFO @ Fri, 16 Oct 2020 08:57:39: 10000000 INFO @ Fri, 16 Oct 2020 08:57:40: 18000000 INFO @ Fri, 16 Oct 2020 08:57:41: 3000000 INFO @ Fri, 16 Oct 2020 08:57:43: 11000000 INFO @ Fri, 16 Oct 2020 08:57:44: 19000000 INFO @ Fri, 16 Oct 2020 08:57:44: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 08:57:44: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 08:57:44: #1 total tags in treatment: 9416497 INFO @ Fri, 16 Oct 2020 08:57:44: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 08:57:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 08:57:44: #1 tags after filtering in treatment: 7171617 INFO @ Fri, 16 Oct 2020 08:57:44: #1 Redundant rate of treatment: 0.24 INFO @ Fri, 16 Oct 2020 08:57:44: #1 finished! INFO @ Fri, 16 Oct 2020 08:57:44: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 08:57:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 08:57:45: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 08:57:45: 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 @ Fri, 16 Oct 2020 08:57:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.05_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/sacCer3/SRX4623315/SRX4623315.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 08:57:45: 4000000 INFO @ Fri, 16 Oct 2020 08:57:47: 12000000 INFO @ Fri, 16 Oct 2020 08:57:49: 5000000 INFO @ Fri, 16 Oct 2020 08:57:51: 13000000 INFO @ Fri, 16 Oct 2020 08:57:53: 6000000 INFO @ Fri, 16 Oct 2020 08:57:55: 14000000 INFO @ Fri, 16 Oct 2020 08:57:58: 7000000 INFO @ Fri, 16 Oct 2020 08:57:59: 15000000 INFO @ Fri, 16 Oct 2020 08:58:02: 8000000 INFO @ Fri, 16 Oct 2020 08:58:02: 16000000 INFO @ Fri, 16 Oct 2020 08:58:06: 9000000 INFO @ Fri, 16 Oct 2020 08:58:06: 17000000 INFO @ Fri, 16 Oct 2020 08:58:10: 10000000 INFO @ Fri, 16 Oct 2020 08:58:10: 18000000 INFO @ Fri, 16 Oct 2020 08:58:14: 11000000 INFO @ Fri, 16 Oct 2020 08:58:14: 19000000 INFO @ Fri, 16 Oct 2020 08:58:15: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 08:58:15: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 08:58:15: #1 total tags in treatment: 9416497 INFO @ Fri, 16 Oct 2020 08:58:15: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 08:58:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 08:58:15: #1 tags after filtering in treatment: 7171617 INFO @ Fri, 16 Oct 2020 08:58:15: #1 Redundant rate of treatment: 0.24 INFO @ Fri, 16 Oct 2020 08:58:15: #1 finished! INFO @ Fri, 16 Oct 2020 08:58:15: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 08:58:15: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 08:58:15: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 08:58:15: 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 @ Fri, 16 Oct 2020 08:58:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.10_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/sacCer3/SRX4623315/SRX4623315.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 08:58:18: 12000000 INFO @ Fri, 16 Oct 2020 08:58:21: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 08:58:25: 14000000 INFO @ Fri, 16 Oct 2020 08:58:29: 15000000 INFO @ Fri, 16 Oct 2020 08:58:33: 16000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 08:58:37: 17000000 INFO @ Fri, 16 Oct 2020 08:58:41: 18000000 INFO @ Fri, 16 Oct 2020 08:58:45: 19000000 INFO @ Fri, 16 Oct 2020 08:58:45: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 08:58:45: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 08:58:45: #1 total tags in treatment: 9416497 INFO @ Fri, 16 Oct 2020 08:58:45: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 08:58:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 08:58:45: #1 tags after filtering in treatment: 7171617 INFO @ Fri, 16 Oct 2020 08:58:45: #1 Redundant rate of treatment: 0.24 INFO @ Fri, 16 Oct 2020 08:58:45: #1 finished! INFO @ Fri, 16 Oct 2020 08:58:45: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 08:58:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 08:58:46: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 08:58:46: 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 @ Fri, 16 Oct 2020 08:58:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.20_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/sacCer3/SRX4623315/SRX4623315.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623315/SRX4623315.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling