Job ID = 6527460 SRX = SRX013110 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:50:54 prefetch.2.10.7: 1) Downloading 'SRR030376'... 2020-06-29T12:50:54 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:51:55 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:51:55 prefetch.2.10.7: 'SRR030376' is valid 2020-06-29T12:51:55 prefetch.2.10.7: 1) 'SRR030376' was downloaded successfully Read 6246853 spots for SRR030376/SRR030376.sra Written 6246853 spots for SRR030376/SRR030376.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: 00:01:20 6246853 reads; of these: 6246853 (100.00%) were unpaired; of these: 462159 (7.40%) aligned 0 times 4854752 (77.72%) aligned exactly 1 time 929942 (14.89%) aligned >1 times 92.60% overall alignment rate Time searching: 00:01:20 Overall time: 00:01:20 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] 150585 / 5784694 = 0.0260 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 21:56:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.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 21:56:29: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:56:29: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:56:35: 1000000 INFO @ Mon, 29 Jun 2020 21:56:40: 2000000 INFO @ Mon, 29 Jun 2020 21:56:46: 3000000 INFO @ Mon, 29 Jun 2020 21:56:52: 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 21:56:57: 5000000 INFO @ Mon, 29 Jun 2020 21:56:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.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 21:56:59: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:56:59: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:57:01: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:57:01: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:57:01: #1 total tags in treatment: 5634109 INFO @ Mon, 29 Jun 2020 21:57:01: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:57:01: #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 21:57:01: #1 tags after filtering in treatment: 5634109 INFO @ Mon, 29 Jun 2020 21:57:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:57:01: #1 finished! INFO @ Mon, 29 Jun 2020 21:57:01: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:57:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:57:02: #2 number of paired peaks: 1 WARNING @ Mon, 29 Jun 2020 21:57:02: Too few paired peaks (1) 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 21:57:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.05_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/SRX013110/SRX013110.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:57:06: 1000000 INFO @ Mon, 29 Jun 2020 21:57:12: 2000000 INFO @ Mon, 29 Jun 2020 21:57:19: 3000000 INFO @ Mon, 29 Jun 2020 21:57:25: 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 21:57:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.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 21:57:29: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:57:29: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:57:32: 5000000 INFO @ Mon, 29 Jun 2020 21:57:36: 1000000 INFO @ Mon, 29 Jun 2020 21:57:37: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:57:37: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:57:37: #1 total tags in treatment: 5634109 INFO @ Mon, 29 Jun 2020 21:57:37: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:57:37: #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 21:57:37: #1 tags after filtering in treatment: 5634109 INFO @ Mon, 29 Jun 2020 21:57:37: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:57:37: #1 finished! INFO @ Mon, 29 Jun 2020 21:57:37: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:57:37: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:57:37: #2 number of paired peaks: 1 WARNING @ Mon, 29 Jun 2020 21:57:37: Too few paired peaks (1) 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 21:57:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.10_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/SRX013110/SRX013110.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:57:43: 2000000 INFO @ Mon, 29 Jun 2020 21:57:50: 3000000 INFO @ Mon, 29 Jun 2020 21:57:56: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 21:58:03: 5000000 INFO @ Mon, 29 Jun 2020 21:58:07: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:58:07: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:58:07: #1 total tags in treatment: 5634109 INFO @ Mon, 29 Jun 2020 21:58:07: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:58:07: #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 21:58:07: #1 tags after filtering in treatment: 5634109 INFO @ Mon, 29 Jun 2020 21:58:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:58:07: #1 finished! INFO @ Mon, 29 Jun 2020 21:58:07: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:58:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:58:07: #2 number of paired peaks: 1 WARNING @ Mon, 29 Jun 2020 21:58:07: Too few paired peaks (1) 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 21:58:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.20_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/SRX013110/SRX013110.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013110/SRX013110.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。