Job ID = 6527476 SRX = SRX025471 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:47:37 prefetch.2.10.7: 1) Downloading 'SRR063866'... 2020-06-29T12:47:37 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:49:04 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:49:05 prefetch.2.10.7: 'SRR063866' is valid 2020-06-29T12:49:05 prefetch.2.10.7: 1) 'SRR063866' was downloaded successfully Read 22443078 spots for SRR063866/SRR063866.sra Written 22443078 spots for SRR063866/SRR063866.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: 00:08:06 22443078 reads; of these: 22443078 (100.00%) were unpaired; of these: 804432 (3.58%) aligned 0 times 13505873 (60.18%) aligned exactly 1 time 8132773 (36.24%) aligned >1 times 96.42% overall alignment rate Time searching: 00:08:06 Overall time: 00:08:06 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] 5646035 / 21638646 = 0.2609 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 22:05:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.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 22:05:17: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:05:17: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:05:23: 1000000 INFO @ Mon, 29 Jun 2020 22:05:28: 2000000 INFO @ Mon, 29 Jun 2020 22:05:34: 3000000 INFO @ Mon, 29 Jun 2020 22:05:40: 4000000 INFO @ Mon, 29 Jun 2020 22:05:45: 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 22:05:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.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 22:05:47: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:05:47: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:05:51: 6000000 INFO @ Mon, 29 Jun 2020 22:05:53: 1000000 INFO @ Mon, 29 Jun 2020 22:05:57: 7000000 INFO @ Mon, 29 Jun 2020 22:05:59: 2000000 INFO @ Mon, 29 Jun 2020 22:06:03: 8000000 INFO @ Mon, 29 Jun 2020 22:06:05: 3000000 INFO @ Mon, 29 Jun 2020 22:06:09: 9000000 INFO @ Mon, 29 Jun 2020 22:06:11: 4000000 INFO @ Mon, 29 Jun 2020 22:06:15: 10000000 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 22:06:17: 5000000 INFO @ Mon, 29 Jun 2020 22:06:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.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 22:06:17: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:06:17: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:06:21: 11000000 INFO @ Mon, 29 Jun 2020 22:06:23: 6000000 INFO @ Mon, 29 Jun 2020 22:06:23: 1000000 INFO @ Mon, 29 Jun 2020 22:06:27: 12000000 INFO @ Mon, 29 Jun 2020 22:06:29: 7000000 INFO @ Mon, 29 Jun 2020 22:06:29: 2000000 INFO @ Mon, 29 Jun 2020 22:06:33: 13000000 INFO @ Mon, 29 Jun 2020 22:06:34: 8000000 INFO @ Mon, 29 Jun 2020 22:06:35: 3000000 INFO @ Mon, 29 Jun 2020 22:06:39: 14000000 INFO @ Mon, 29 Jun 2020 22:06:40: 9000000 INFO @ Mon, 29 Jun 2020 22:06:41: 4000000 INFO @ Mon, 29 Jun 2020 22:06:46: 15000000 INFO @ Mon, 29 Jun 2020 22:06:46: 10000000 INFO @ Mon, 29 Jun 2020 22:06:47: 5000000 INFO @ Mon, 29 Jun 2020 22:06:51: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:06:51: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:06:51: #1 total tags in treatment: 15992611 INFO @ Mon, 29 Jun 2020 22:06:51: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:06:51: #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 22:06:52: #1 tags after filtering in treatment: 15992611 INFO @ Mon, 29 Jun 2020 22:06:52: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:06:52: #1 finished! INFO @ Mon, 29 Jun 2020 22:06:52: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:06:52: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:06:52: 11000000 INFO @ Mon, 29 Jun 2020 22:06:53: #2 number of paired peaks: 55 WARNING @ Mon, 29 Jun 2020 22:06:53: Too few paired peaks (55) 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 22:06:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.05_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/SRX025471/SRX025471.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:06:53: 6000000 INFO @ Mon, 29 Jun 2020 22:06:58: 12000000 INFO @ Mon, 29 Jun 2020 22:06:59: 7000000 INFO @ Mon, 29 Jun 2020 22:07:04: 13000000 INFO @ Mon, 29 Jun 2020 22:07:05: 8000000 INFO @ Mon, 29 Jun 2020 22:07:10: 14000000 INFO @ Mon, 29 Jun 2020 22:07:11: 9000000 INFO @ Mon, 29 Jun 2020 22:07:16: 15000000 INFO @ Mon, 29 Jun 2020 22:07:17: 10000000 INFO @ Mon, 29 Jun 2020 22:07:21: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:07:21: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:07:21: #1 total tags in treatment: 15992611 INFO @ Mon, 29 Jun 2020 22:07:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:07:21: #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 22:07:22: #1 tags after filtering in treatment: 15992611 INFO @ Mon, 29 Jun 2020 22:07:22: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:07:22: #1 finished! INFO @ Mon, 29 Jun 2020 22:07:22: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:07:22: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:07:22: 11000000 INFO @ Mon, 29 Jun 2020 22:07:23: #2 number of paired peaks: 55 WARNING @ Mon, 29 Jun 2020 22:07:23: Too few paired peaks (55) 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 22:07:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.10_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/SRX025471/SRX025471.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:07:28: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:07:34: 13000000 INFO @ Mon, 29 Jun 2020 22:07:40: 14000000 INFO @ Mon, 29 Jun 2020 22:07:45: 15000000 INFO @ Mon, 29 Jun 2020 22:07:51: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 22:07:51: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 22:07:51: #1 total tags in treatment: 15992611 INFO @ Mon, 29 Jun 2020 22:07:51: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:07:51: #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 22:07:51: #1 tags after filtering in treatment: 15992611 INFO @ Mon, 29 Jun 2020 22:07:51: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:07:51: #1 finished! INFO @ Mon, 29 Jun 2020 22:07:51: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:07:51: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:07:52: #2 number of paired peaks: 55 WARNING @ Mon, 29 Jun 2020 22:07:52: Too few paired peaks (55) 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 22:07:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.20_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/SRX025471/SRX025471.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX025471/SRX025471.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。