Job ID = 6527466 SRX = SRX016171 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:21:25 prefetch.2.10.7: 1) Downloading 'SRR034741'... 2020-06-29T12:21:25 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:23:06 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:23:07 prefetch.2.10.7: 'SRR034741' is valid 2020-06-29T12:23:07 prefetch.2.10.7: 1) 'SRR034741' was downloaded successfully Read 14001872 spots for SRR034741/SRR034741.sra Written 14001872 spots for SRR034741/SRR034741.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: 00:00:01 Multiseed full-index search: 00:03:00 14001872 reads; of these: 14001872 (100.00%) were unpaired; of these: 1141725 (8.15%) aligned 0 times 10893606 (77.80%) aligned exactly 1 time 1966541 (14.04%) aligned >1 times 91.85% overall alignment rate Time searching: 00:03:01 Overall time: 00:03:01 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] 3119285 / 12860147 = 0.2426 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 21:32:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.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 21:32:41: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:32:41: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:32:46: 1000000 INFO @ Mon, 29 Jun 2020 21:32:52: 2000000 INFO @ Mon, 29 Jun 2020 21:32:57: 3000000 INFO @ Mon, 29 Jun 2020 21:33:02: 4000000 INFO @ Mon, 29 Jun 2020 21:33:06: 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 21:33:11: 6000000 INFO @ Mon, 29 Jun 2020 21:33:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.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 21:33:12: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:33:12: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:33:16: 7000000 INFO @ Mon, 29 Jun 2020 21:33:17: 1000000 INFO @ Mon, 29 Jun 2020 21:33:21: 8000000 INFO @ Mon, 29 Jun 2020 21:33:22: 2000000 INFO @ Mon, 29 Jun 2020 21:33:26: 9000000 INFO @ Mon, 29 Jun 2020 21:33:27: 3000000 INFO @ Mon, 29 Jun 2020 21:33:30: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:33:30: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:33:30: #1 total tags in treatment: 9740862 INFO @ Mon, 29 Jun 2020 21:33:30: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:33:30: #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 21:33:30: #1 tags after filtering in treatment: 9740862 INFO @ Mon, 29 Jun 2020 21:33:30: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:33:30: #1 finished! INFO @ Mon, 29 Jun 2020 21:33:30: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:33:30: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:33:30: #2 number of paired peaks: 82 WARNING @ Mon, 29 Jun 2020 21:33:30: Too few paired peaks (82) 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 21:33:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.05_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/SRX016171/SRX016171.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:33:32: 4000000 INFO @ Mon, 29 Jun 2020 21:33:37: 5000000 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 21:33:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.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 21:33:41: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:33:41: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:33:41: 6000000 INFO @ Mon, 29 Jun 2020 21:33:47: 7000000 INFO @ Mon, 29 Jun 2020 21:33:47: 1000000 INFO @ Mon, 29 Jun 2020 21:33:52: 8000000 INFO @ Mon, 29 Jun 2020 21:33:52: 2000000 INFO @ Mon, 29 Jun 2020 21:33:57: 9000000 INFO @ Mon, 29 Jun 2020 21:33:58: 3000000 INFO @ Mon, 29 Jun 2020 21:34:01: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:34:01: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:34:01: #1 total tags in treatment: 9740862 INFO @ Mon, 29 Jun 2020 21:34:01: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:34:01: #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 21:34:01: #1 tags after filtering in treatment: 9740862 INFO @ Mon, 29 Jun 2020 21:34:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:34:01: #1 finished! INFO @ Mon, 29 Jun 2020 21:34:01: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:34:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:34:02: #2 number of paired peaks: 82 WARNING @ Mon, 29 Jun 2020 21:34:02: Too few paired peaks (82) 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 21:34:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.10_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/SRX016171/SRX016171.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:34:03: 4000000 INFO @ Mon, 29 Jun 2020 21:34:08: 5000000 INFO @ Mon, 29 Jun 2020 21:34:13: 6000000 INFO @ Mon, 29 Jun 2020 21:34:18: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 21:34:23: 8000000 INFO @ Mon, 29 Jun 2020 21:34:28: 9000000 INFO @ Mon, 29 Jun 2020 21:34:32: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:34:32: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:34:32: #1 total tags in treatment: 9740862 INFO @ Mon, 29 Jun 2020 21:34:32: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:34:32: #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 21:34:32: #1 tags after filtering in treatment: 9740862 INFO @ Mon, 29 Jun 2020 21:34:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:34:32: #1 finished! INFO @ Mon, 29 Jun 2020 21:34:32: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:34:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:34:32: #2 number of paired peaks: 82 WARNING @ Mon, 29 Jun 2020 21:34:32: Too few paired peaks (82) 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 21:34:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX016171/SRX016171.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。