Job ID = 6528287 SRX = SRX5243666 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:37:36 prefetch.2.10.7: 1) Downloading 'SRR8436123'... 2020-06-29T14:37:36 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:39:42 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:39:43 prefetch.2.10.7: 'SRR8436123' is valid 2020-06-29T14:39:43 prefetch.2.10.7: 1) 'SRR8436123' was downloaded successfully Read 8023210 spots for SRR8436123/SRR8436123.sra Written 8023210 spots for SRR8436123/SRR8436123.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: 00:02:31 8023210 reads; of these: 8023210 (100.00%) were unpaired; of these: 444542 (5.54%) aligned 0 times 5720043 (71.29%) aligned exactly 1 time 1858625 (23.17%) aligned >1 times 94.46% overall alignment rate Time searching: 00:02:31 Overall time: 00:02:31 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] 1364922 / 7578668 = 0.1801 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 23:46:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.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 23:46:53: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:46:53: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:46:59: 1000000 INFO @ Mon, 29 Jun 2020 23:47:05: 2000000 INFO @ Mon, 29 Jun 2020 23:47:12: 3000000 INFO @ Mon, 29 Jun 2020 23:47:18: 4000000 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 23:47:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.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 23:47:23: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:47:23: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:47:24: 5000000 INFO @ Mon, 29 Jun 2020 23:47:29: 1000000 INFO @ Mon, 29 Jun 2020 23:47:31: 6000000 INFO @ Mon, 29 Jun 2020 23:47:32: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:47:32: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:47:32: #1 total tags in treatment: 6213746 INFO @ Mon, 29 Jun 2020 23:47:32: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:47:32: #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 23:47:32: #1 tags after filtering in treatment: 6213746 INFO @ Mon, 29 Jun 2020 23:47:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:47:32: #1 finished! INFO @ Mon, 29 Jun 2020 23:47:32: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:47:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:47:33: #2 number of paired peaks: 54 WARNING @ Mon, 29 Jun 2020 23:47:33: Too few paired peaks (54) 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 23:47:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.05_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/SRX5243666/SRX5243666.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:47:35: 2000000 INFO @ Mon, 29 Jun 2020 23:47:42: 3000000 INFO @ Mon, 29 Jun 2020 23:47:48: 4000000 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 23:47:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.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 23:47:53: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:47:53: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:47:54: 5000000 INFO @ Mon, 29 Jun 2020 23:47:59: 1000000 INFO @ Mon, 29 Jun 2020 23:48:00: 6000000 INFO @ Mon, 29 Jun 2020 23:48:01: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:48:01: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:48:01: #1 total tags in treatment: 6213746 INFO @ Mon, 29 Jun 2020 23:48:01: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:48:01: #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 23:48:01: #1 tags after filtering in treatment: 6213746 INFO @ Mon, 29 Jun 2020 23:48:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:48:01: #1 finished! INFO @ Mon, 29 Jun 2020 23:48:01: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:48:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:48:02: #2 number of paired peaks: 54 WARNING @ Mon, 29 Jun 2020 23:48:02: Too few paired peaks (54) 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 23:48:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.10_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/SRX5243666/SRX5243666.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:48:05: 2000000 INFO @ Mon, 29 Jun 2020 23:48:11: 3000000 INFO @ Mon, 29 Jun 2020 23:48:17: 4000000 INFO @ Mon, 29 Jun 2020 23:48:23: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:48:29: 6000000 INFO @ Mon, 29 Jun 2020 23:48:31: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:48:31: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:48:31: #1 total tags in treatment: 6213746 INFO @ Mon, 29 Jun 2020 23:48:31: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:48:31: #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 23:48:31: #1 tags after filtering in treatment: 6213746 INFO @ Mon, 29 Jun 2020 23:48:31: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:48:31: #1 finished! INFO @ Mon, 29 Jun 2020 23:48:31: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:48:31: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:48:31: #2 number of paired peaks: 54 WARNING @ Mon, 29 Jun 2020 23:48:31: Too few paired peaks (54) 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 23:48:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.20_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/SRX5243666/SRX5243666.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5243666/SRX5243666.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。