Job ID = 6527447 SRX = SRX011652 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:43:01 prefetch.2.10.7: 1) Downloading 'SRR028000'... 2020-06-29T12:43:01 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:44:53 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:44:53 prefetch.2.10.7: 'SRR028000' is valid 2020-06-29T12:44:53 prefetch.2.10.7: 1) 'SRR028000' was downloaded successfully Read 16290068 spots for SRR028000/SRR028000.sra Written 16290068 spots for SRR028000/SRR028000.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: 00:03:16 16290068 reads; of these: 16290068 (100.00%) were unpaired; of these: 2163225 (13.28%) aligned 0 times 11887428 (72.97%) aligned exactly 1 time 2239415 (13.75%) aligned >1 times 86.72% overall alignment rate Time searching: 00:03:16 Overall time: 00:03:16 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_rmdupse_core] 707089 / 14126843 = 0.0501 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 @ Mon, 29 Jun 2020 21:55:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.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 @ Mon, 29 Jun 2020 21:55:44: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:55:44: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:55:50: 1000000 INFO @ Mon, 29 Jun 2020 21:55:55: 2000000 INFO @ Mon, 29 Jun 2020 21:56:00: 3000000 INFO @ Mon, 29 Jun 2020 21:56:05: 4000000 INFO @ Mon, 29 Jun 2020 21:56:11: 5000000 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 @ Mon, 29 Jun 2020 21:56:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.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 @ Mon, 29 Jun 2020 21:56:14: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:56:14: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:56:16: 6000000 INFO @ Mon, 29 Jun 2020 21:56:20: 1000000 INFO @ Mon, 29 Jun 2020 21:56:22: 7000000 INFO @ Mon, 29 Jun 2020 21:56:25: 2000000 INFO @ Mon, 29 Jun 2020 21:56:27: 8000000 INFO @ Mon, 29 Jun 2020 21:56:31: 3000000 INFO @ Mon, 29 Jun 2020 21:56:33: 9000000 INFO @ Mon, 29 Jun 2020 21:56:37: 4000000 INFO @ Mon, 29 Jun 2020 21:56:38: 10000000 INFO @ Mon, 29 Jun 2020 21:56:42: 5000000 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 @ Mon, 29 Jun 2020 21:56:44: 11000000 INFO @ Mon, 29 Jun 2020 21:56:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.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 @ Mon, 29 Jun 2020 21:56:44: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:56:44: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:56:48: 6000000 INFO @ Mon, 29 Jun 2020 21:56:49: 12000000 INFO @ Mon, 29 Jun 2020 21:56:50: 1000000 INFO @ Mon, 29 Jun 2020 21:56:53: 7000000 INFO @ Mon, 29 Jun 2020 21:56:55: 13000000 INFO @ Mon, 29 Jun 2020 21:56:56: 2000000 INFO @ Mon, 29 Jun 2020 21:56:57: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:56:57: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:56:57: #1 total tags in treatment: 13419754 INFO @ Mon, 29 Jun 2020 21:56:57: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:56:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 21:56:58: #1 tags after filtering in treatment: 13419754 INFO @ Mon, 29 Jun 2020 21:56:58: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:56:58: #1 finished! INFO @ Mon, 29 Jun 2020 21:56:58: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:56:58: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:56:58: #2 number of paired peaks: 96 WARNING @ Mon, 29 Jun 2020 21:56:58: Too few paired peaks (96) 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 @ Mon, 29 Jun 2020 21:56:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.05_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/SRX011652/SRX011652.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:56:59: 8000000 INFO @ Mon, 29 Jun 2020 21:57:02: 3000000 INFO @ Mon, 29 Jun 2020 21:57:04: 9000000 INFO @ Mon, 29 Jun 2020 21:57:07: 4000000 INFO @ Mon, 29 Jun 2020 21:57:10: 10000000 INFO @ Mon, 29 Jun 2020 21:57:13: 5000000 INFO @ Mon, 29 Jun 2020 21:57:16: 11000000 INFO @ Mon, 29 Jun 2020 21:57:18: 6000000 INFO @ Mon, 29 Jun 2020 21:57:21: 12000000 INFO @ Mon, 29 Jun 2020 21:57:24: 7000000 INFO @ Mon, 29 Jun 2020 21:57:27: 13000000 INFO @ Mon, 29 Jun 2020 21:57:29: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:57:29: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:57:29: #1 total tags in treatment: 13419754 INFO @ Mon, 29 Jun 2020 21:57:29: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:57:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 21:57:29: #1 tags after filtering in treatment: 13419754 INFO @ Mon, 29 Jun 2020 21:57:29: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:57:29: #1 finished! INFO @ Mon, 29 Jun 2020 21:57:29: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:57:29: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:57:29: 8000000 INFO @ Mon, 29 Jun 2020 21:57:30: #2 number of paired peaks: 96 WARNING @ Mon, 29 Jun 2020 21:57:30: Too few paired peaks (96) 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 @ Mon, 29 Jun 2020 21:57:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.10_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/SRX011652/SRX011652.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:57:35: 9000000 INFO @ Mon, 29 Jun 2020 21:57:40: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 21:57:46: 11000000 INFO @ Mon, 29 Jun 2020 21:57:51: 12000000 INFO @ Mon, 29 Jun 2020 21:57:56: 13000000 INFO @ Mon, 29 Jun 2020 21:57:59: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:57:59: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:57:59: #1 total tags in treatment: 13419754 INFO @ Mon, 29 Jun 2020 21:57:59: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:57:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 21:57:59: #1 tags after filtering in treatment: 13419754 INFO @ Mon, 29 Jun 2020 21:57:59: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:57:59: #1 finished! INFO @ Mon, 29 Jun 2020 21:57:59: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:57:59: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:58:00: #2 number of paired peaks: 96 WARNING @ Mon, 29 Jun 2020 21:58:00: Too few paired peaks (96) 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 @ Mon, 29 Jun 2020 21:58:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.20_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/SRX011652/SRX011652.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX011652/SRX011652.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。