Job ID = 6527567 SRX = SRX111788 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:02:36 prefetch.2.10.7: 1) Downloading 'SRR390238'... 2020-06-29T13:02:36 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:04:21 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:04:22 prefetch.2.10.7: 'SRR390238' is valid 2020-06-29T13:04:22 prefetch.2.10.7: 1) 'SRR390238' was downloaded successfully Read 18793516 spots for SRR390238/SRR390238.sra Written 18793516 spots for SRR390238/SRR390238.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: 00:06:57 18793516 reads; of these: 18793516 (100.00%) were unpaired; of these: 340142 (1.81%) aligned 0 times 12460286 (66.30%) aligned exactly 1 time 5993088 (31.89%) aligned >1 times 98.19% overall alignment rate Time searching: 00:06:58 Overall time: 00:06:58 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] 4371399 / 18453374 = 0.2369 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 22:20:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.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 22:20:51: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:20:51: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:20:57: 1000000 INFO @ Mon, 29 Jun 2020 22:21:04: 2000000 INFO @ Mon, 29 Jun 2020 22:21:10: 3000000 INFO @ Mon, 29 Jun 2020 22:21:16: 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 22:21:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.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 22:21:21: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:21:21: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:21:23: 5000000 INFO @ Mon, 29 Jun 2020 22:21:27: 1000000 INFO @ Mon, 29 Jun 2020 22:21:29: 6000000 INFO @ Mon, 29 Jun 2020 22:21:33: 2000000 INFO @ Mon, 29 Jun 2020 22:21:36: 7000000 INFO @ Mon, 29 Jun 2020 22:21:39: 3000000 INFO @ Mon, 29 Jun 2020 22:21:43: 8000000 INFO @ Mon, 29 Jun 2020 22:21:46: 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 22:21:50: 9000000 INFO @ Mon, 29 Jun 2020 22:21:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.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 22:21:51: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:21:51: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:21:52: 5000000 INFO @ Mon, 29 Jun 2020 22:21:57: 10000000 INFO @ Mon, 29 Jun 2020 22:21:58: 1000000 INFO @ Mon, 29 Jun 2020 22:21:58: 6000000 INFO @ Mon, 29 Jun 2020 22:22:04: 11000000 INFO @ Mon, 29 Jun 2020 22:22:04: 2000000 INFO @ Mon, 29 Jun 2020 22:22:05: 7000000 INFO @ Mon, 29 Jun 2020 22:22:11: 3000000 INFO @ Mon, 29 Jun 2020 22:22:11: 12000000 INFO @ Mon, 29 Jun 2020 22:22:11: 8000000 INFO @ Mon, 29 Jun 2020 22:22:18: 4000000 INFO @ Mon, 29 Jun 2020 22:22:18: 9000000 INFO @ Mon, 29 Jun 2020 22:22:18: 13000000 INFO @ Mon, 29 Jun 2020 22:22:25: 10000000 INFO @ Mon, 29 Jun 2020 22:22:25: 5000000 INFO @ Mon, 29 Jun 2020 22:22:25: 14000000 INFO @ Mon, 29 Jun 2020 22:22:26: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 22:22:26: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 22:22:26: #1 total tags in treatment: 14081975 INFO @ Mon, 29 Jun 2020 22:22:26: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:22:26: #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 22:22:26: #1 tags after filtering in treatment: 14081975 INFO @ Mon, 29 Jun 2020 22:22:26: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:22:26: #1 finished! INFO @ Mon, 29 Jun 2020 22:22:26: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:22:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:22:27: #2 number of paired peaks: 71 WARNING @ Mon, 29 Jun 2020 22:22:27: Too few paired peaks (71) 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 22:22:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.05_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/SRX111788/SRX111788.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:22:31: 11000000 INFO @ Mon, 29 Jun 2020 22:22:31: 6000000 INFO @ Mon, 29 Jun 2020 22:22:37: 12000000 INFO @ Mon, 29 Jun 2020 22:22:38: 7000000 INFO @ Mon, 29 Jun 2020 22:22:43: 13000000 INFO @ Mon, 29 Jun 2020 22:22:44: 8000000 INFO @ Mon, 29 Jun 2020 22:22:49: 14000000 INFO @ Mon, 29 Jun 2020 22:22:50: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 22:22:50: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 22:22:50: #1 total tags in treatment: 14081975 INFO @ Mon, 29 Jun 2020 22:22:50: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:22:50: #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 22:22:50: #1 tags after filtering in treatment: 14081975 INFO @ Mon, 29 Jun 2020 22:22:50: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:22:50: #1 finished! INFO @ Mon, 29 Jun 2020 22:22:50: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:22:50: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:22:50: 9000000 INFO @ Mon, 29 Jun 2020 22:22:51: #2 number of paired peaks: 71 WARNING @ Mon, 29 Jun 2020 22:22:51: Too few paired peaks (71) 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 22:22:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.10_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/SRX111788/SRX111788.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:22:57: 10000000 INFO @ Mon, 29 Jun 2020 22:23:03: 11000000 INFO @ Mon, 29 Jun 2020 22:23:09: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:23:15: 13000000 INFO @ Mon, 29 Jun 2020 22:23:21: 14000000 INFO @ Mon, 29 Jun 2020 22:23:21: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 22:23:21: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 22:23:21: #1 total tags in treatment: 14081975 INFO @ Mon, 29 Jun 2020 22:23:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:23:21: #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 22:23:21: #1 tags after filtering in treatment: 14081975 INFO @ Mon, 29 Jun 2020 22:23:21: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:23:21: #1 finished! INFO @ Mon, 29 Jun 2020 22:23:21: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:23:21: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:23:22: #2 number of paired peaks: 71 WARNING @ Mon, 29 Jun 2020 22:23:22: Too few paired peaks (71) 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 22:23:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.20_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/SRX111788/SRX111788.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111788/SRX111788.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。