Job ID = 6527666 SRX = SRX2011088 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:07:50 prefetch.2.10.7: 1) Downloading 'SRR4017241'... 2020-06-29T13:07:50 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:10:37 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:10:37 prefetch.2.10.7: 1) 'SRR4017241' was downloaded successfully Read 15423880 spots for SRR4017241/SRR4017241.sra Written 15423880 spots for SRR4017241/SRR4017241.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: 00:08:02 15423880 reads; of these: 15423880 (100.00%) were unpaired; of these: 560135 (3.63%) aligned 0 times 12068478 (78.25%) aligned exactly 1 time 2795267 (18.12%) aligned >1 times 96.37% overall alignment rate Time searching: 00:08:02 Overall time: 00:08:02 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 8 files... [bam_rmdupse_core] 720417 / 14863745 = 0.0485 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 22:35:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.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 22:35:46: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:35:46: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:35:53: 1000000 INFO @ Mon, 29 Jun 2020 22:36:00: 2000000 INFO @ Mon, 29 Jun 2020 22:36:08: 3000000 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 22:36:15: 4000000 INFO @ Mon, 29 Jun 2020 22:36:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.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 22:36:15: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:36:15: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:36:22: 5000000 INFO @ Mon, 29 Jun 2020 22:36:23: 1000000 INFO @ Mon, 29 Jun 2020 22:36:30: 6000000 INFO @ Mon, 29 Jun 2020 22:36:31: 2000000 INFO @ Mon, 29 Jun 2020 22:36:37: 7000000 INFO @ Mon, 29 Jun 2020 22:36:38: 3000000 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 22:36:44: 8000000 INFO @ Mon, 29 Jun 2020 22:36:46: 4000000 INFO @ Mon, 29 Jun 2020 22:36:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.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 22:36:46: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:36:46: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:36:53: 9000000 INFO @ Mon, 29 Jun 2020 22:36:53: 5000000 INFO @ Mon, 29 Jun 2020 22:36:54: 1000000 INFO @ Mon, 29 Jun 2020 22:37:00: 6000000 INFO @ Mon, 29 Jun 2020 22:37:01: 10000000 INFO @ Mon, 29 Jun 2020 22:37:03: 2000000 INFO @ Mon, 29 Jun 2020 22:37:08: 7000000 INFO @ Mon, 29 Jun 2020 22:37:10: 11000000 INFO @ Mon, 29 Jun 2020 22:37:12: 3000000 INFO @ Mon, 29 Jun 2020 22:37:15: 8000000 INFO @ Mon, 29 Jun 2020 22:37:18: 12000000 INFO @ Mon, 29 Jun 2020 22:37:20: 4000000 INFO @ Mon, 29 Jun 2020 22:37:22: 9000000 INFO @ Mon, 29 Jun 2020 22:37:26: 13000000 INFO @ Mon, 29 Jun 2020 22:37:29: 5000000 INFO @ Mon, 29 Jun 2020 22:37:30: 10000000 INFO @ Mon, 29 Jun 2020 22:37:35: 14000000 INFO @ Mon, 29 Jun 2020 22:37:36: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 22:37:36: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 22:37:36: #1 total tags in treatment: 14143328 INFO @ Mon, 29 Jun 2020 22:37:36: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:37:36: #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 22:37:36: #1 tags after filtering in treatment: 14143328 INFO @ Mon, 29 Jun 2020 22:37:36: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:37:36: #1 finished! INFO @ Mon, 29 Jun 2020 22:37:36: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:37:36: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:37:37: 6000000 INFO @ Mon, 29 Jun 2020 22:37:37: #2 number of paired peaks: 39 WARNING @ Mon, 29 Jun 2020 22:37:37: Too few paired peaks (39) 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 22:37:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.05_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/SRX2011088/SRX2011088.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:37:37: 11000000 INFO @ Mon, 29 Jun 2020 22:37:44: 7000000 INFO @ Mon, 29 Jun 2020 22:37:45: 12000000 INFO @ Mon, 29 Jun 2020 22:37:51: 8000000 INFO @ Mon, 29 Jun 2020 22:37:53: 13000000 INFO @ Mon, 29 Jun 2020 22:37:59: 9000000 INFO @ Mon, 29 Jun 2020 22:38:01: 14000000 INFO @ Mon, 29 Jun 2020 22:38:03: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 22:38:03: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 22:38:03: #1 total tags in treatment: 14143328 INFO @ Mon, 29 Jun 2020 22:38:03: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:38:03: #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 22:38:03: #1 tags after filtering in treatment: 14143328 INFO @ Mon, 29 Jun 2020 22:38:03: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:38:03: #1 finished! INFO @ Mon, 29 Jun 2020 22:38:03: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:38:03: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:38:04: #2 number of paired peaks: 39 WARNING @ Mon, 29 Jun 2020 22:38:04: Too few paired peaks (39) 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 22:38:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.10_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/SRX2011088/SRX2011088.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:38:06: 10000000 INFO @ Mon, 29 Jun 2020 22:38:14: 11000000 INFO @ Mon, 29 Jun 2020 22:38:21: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:38:28: 13000000 INFO @ Mon, 29 Jun 2020 22:38:36: 14000000 INFO @ Mon, 29 Jun 2020 22:38:37: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 22:38:37: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 22:38:37: #1 total tags in treatment: 14143328 INFO @ Mon, 29 Jun 2020 22:38:37: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:38:37: #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 22:38:37: #1 tags after filtering in treatment: 14143328 INFO @ Mon, 29 Jun 2020 22:38:37: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:38:37: #1 finished! INFO @ Mon, 29 Jun 2020 22:38:37: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:38:37: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:38:38: #2 number of paired peaks: 39 WARNING @ Mon, 29 Jun 2020 22:38:38: Too few paired peaks (39) 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 22:38:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.20_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/SRX2011088/SRX2011088.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2011088/SRX2011088.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。