Job ID = 6528165 SRX = SRX4933881 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:41:57 prefetch.2.10.7: 1) Downloading 'SRR8107271'... 2020-06-29T14:41:57 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:43:30 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:43:31 prefetch.2.10.7: 'SRR8107271' is valid 2020-06-29T14:43:31 prefetch.2.10.7: 1) 'SRR8107271' was downloaded successfully 2020-06-29T14:43:31 prefetch.2.10.7: 'SRR8107271' has 0 unresolved dependencies Read 11833776 spots for SRR8107271/SRR8107271.sra Written 11833776 spots for SRR8107271/SRR8107271.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: 00:04:31 11833776 reads; of these: 11833776 (100.00%) were unpaired; of these: 2303112 (19.46%) aligned 0 times 5980220 (50.54%) aligned exactly 1 time 3550444 (30.00%) aligned >1 times 80.54% overall alignment rate Time searching: 00:04:31 Overall time: 00:04:31 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] 2605038 / 9530664 = 0.2733 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 23:55:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.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 23:55:47: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:55:47: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:55:56: 1000000 INFO @ Mon, 29 Jun 2020 23:56:05: 2000000 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 23:56:15: 3000000 INFO @ Mon, 29 Jun 2020 23:56:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.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 23:56:17: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:56:17: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:56:24: 4000000 INFO @ Mon, 29 Jun 2020 23:56:26: 1000000 INFO @ Mon, 29 Jun 2020 23:56:34: 5000000 INFO @ Mon, 29 Jun 2020 23:56:36: 2000000 INFO @ Mon, 29 Jun 2020 23:56:44: 6000000 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 23:56:46: 3000000 INFO @ Mon, 29 Jun 2020 23:56:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.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 23:56:47: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:56:47: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:56:53: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:56:53: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:56:53: #1 total tags in treatment: 6925626 INFO @ Mon, 29 Jun 2020 23:56:53: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:56:53: #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 23:56:53: #1 tags after filtering in treatment: 6925626 INFO @ Mon, 29 Jun 2020 23:56:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:56:53: #1 finished! INFO @ Mon, 29 Jun 2020 23:56:53: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:56:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:56:53: #2 number of paired peaks: 38 WARNING @ Mon, 29 Jun 2020 23:56:53: Too few paired peaks (38) 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 23:56:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.05_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/SRX4933881/SRX4933881.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:56:56: 4000000 INFO @ Mon, 29 Jun 2020 23:56:57: 1000000 INFO @ Mon, 29 Jun 2020 23:57:05: 5000000 INFO @ Mon, 29 Jun 2020 23:57:06: 2000000 INFO @ Mon, 29 Jun 2020 23:57:15: 6000000 INFO @ Mon, 29 Jun 2020 23:57:16: 3000000 INFO @ Mon, 29 Jun 2020 23:57:24: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:57:24: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:57:24: #1 total tags in treatment: 6925626 INFO @ Mon, 29 Jun 2020 23:57:24: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:57:24: #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 23:57:24: #1 tags after filtering in treatment: 6925626 INFO @ Mon, 29 Jun 2020 23:57:24: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:57:24: #1 finished! INFO @ Mon, 29 Jun 2020 23:57:24: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:57:24: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:57:24: #2 number of paired peaks: 38 WARNING @ Mon, 29 Jun 2020 23:57:24: Too few paired peaks (38) 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 23:57:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.10_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/SRX4933881/SRX4933881.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:57:28: 4000000 INFO @ Mon, 29 Jun 2020 23:57:38: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:57:48: 6000000 INFO @ Mon, 29 Jun 2020 23:57:57: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:57:57: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:57:57: #1 total tags in treatment: 6925626 INFO @ Mon, 29 Jun 2020 23:57:57: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:57:57: #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 23:57:57: #1 tags after filtering in treatment: 6925626 INFO @ Mon, 29 Jun 2020 23:57:57: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:57:57: #1 finished! INFO @ Mon, 29 Jun 2020 23:57:57: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:57:57: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:57:58: #2 number of paired peaks: 38 WARNING @ Mon, 29 Jun 2020 23:57:58: Too few paired peaks (38) 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 23:57:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.20_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/SRX4933881/SRX4933881.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4933881/SRX4933881.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。