Job ID = 8071395 SRX = SRX7917553 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-08-08T04:27:28 prefetch.2.10.7: 1) Downloading 'SRR11313134'... 2020-08-08T04:27:28 prefetch.2.10.7: Downloading via HTTPS... 2020-08-08T04:27:57 prefetch.2.10.7: HTTPS download succeed 2020-08-08T04:27:57 prefetch.2.10.7: 'SRR11313134' is valid 2020-08-08T04:27:57 prefetch.2.10.7: 1) 'SRR11313134' was downloaded successfully Read 2636518 spots for SRR11313134/SRR11313134.sra Written 2636518 spots for SRR11313134/SRR11313134.sra fastq に変換しました。 bowtie でマッピング中... Your job 8072534 ("srTdm6") has been submitted Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:26 2636518 reads; of these: 2636518 (100.00%) were paired; of these: 693655 (26.31%) aligned concordantly 0 times 1421562 (53.92%) aligned concordantly exactly 1 time 521301 (19.77%) aligned concordantly >1 times ---- 693655 pairs aligned concordantly 0 times; of these: 238277 (34.35%) aligned discordantly 1 time ---- 455378 pairs aligned 0 times concordantly or discordantly; of these: 910756 mates make up the pairs; of these: 552328 (60.65%) aligned 0 times 139671 (15.34%) aligned exactly 1 time 218757 (24.02%) aligned >1 times 89.53% overall alignment rate Time searching: 00:05:27 Overall time: 00:05:27 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_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 614341 / 2173509 = 0.2826 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 @ Sat, 08 Aug 2020 13:35:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.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 @ Sat, 08 Aug 2020 13:35:19: #1 read tag files... INFO @ Sat, 08 Aug 2020 13:35:19: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 13:35:25: 1000000 INFO @ Sat, 08 Aug 2020 13:35:33: 2000000 INFO @ Sat, 08 Aug 2020 13:35:42: 3000000 INFO @ Sat, 08 Aug 2020 13:35:47: #1 tag size is determined as 62 bps INFO @ Sat, 08 Aug 2020 13:35:47: #1 tag size = 62 INFO @ Sat, 08 Aug 2020 13:35:47: #1 total tags in treatment: 1354169 INFO @ Sat, 08 Aug 2020 13:35:47: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 13:35:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Aug 2020 13:35:47: #1 tags after filtering in treatment: 1102251 INFO @ Sat, 08 Aug 2020 13:35:47: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 08 Aug 2020 13:35:47: #1 finished! INFO @ Sat, 08 Aug 2020 13:35:47: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 13:35:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 13:35:47: #2 number of paired peaks: 12 WARNING @ Sat, 08 Aug 2020 13:35:47: Too few paired peaks (12) 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 @ Sat, 08 Aug 2020 13:35:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.05_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/SRX7917553/SRX7917553.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 @ Sat, 08 Aug 2020 13:35:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.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 @ Sat, 08 Aug 2020 13:35:49: #1 read tag files... INFO @ Sat, 08 Aug 2020 13:35:49: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 13:35:55: 1000000 INFO @ Sat, 08 Aug 2020 13:36:00: 2000000 INFO @ Sat, 08 Aug 2020 13:36:05: 3000000 INFO @ Sat, 08 Aug 2020 13:36:08: #1 tag size is determined as 62 bps INFO @ Sat, 08 Aug 2020 13:36:08: #1 tag size = 62 INFO @ Sat, 08 Aug 2020 13:36:08: #1 total tags in treatment: 1354169 INFO @ Sat, 08 Aug 2020 13:36:08: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 13:36:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Aug 2020 13:36:08: #1 tags after filtering in treatment: 1102251 INFO @ Sat, 08 Aug 2020 13:36:08: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 08 Aug 2020 13:36:08: #1 finished! INFO @ Sat, 08 Aug 2020 13:36:08: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 13:36:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 13:36:08: #2 number of paired peaks: 12 WARNING @ Sat, 08 Aug 2020 13:36:08: Too few paired peaks (12) 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 @ Sat, 08 Aug 2020 13:36:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.10_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/SRX7917553/SRX7917553.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 @ Sat, 08 Aug 2020 13:36:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.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 @ Sat, 08 Aug 2020 13:36:19: #1 read tag files... INFO @ Sat, 08 Aug 2020 13:36:19: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 13:36:25: 1000000 INFO @ Sat, 08 Aug 2020 13:36:30: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 08 Aug 2020 13:36:35: 3000000 INFO @ Sat, 08 Aug 2020 13:36:38: #1 tag size is determined as 62 bps INFO @ Sat, 08 Aug 2020 13:36:38: #1 tag size = 62 INFO @ Sat, 08 Aug 2020 13:36:38: #1 total tags in treatment: 1354169 INFO @ Sat, 08 Aug 2020 13:36:38: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 13:36:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Aug 2020 13:36:38: #1 tags after filtering in treatment: 1102251 INFO @ Sat, 08 Aug 2020 13:36:38: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 08 Aug 2020 13:36:38: #1 finished! INFO @ Sat, 08 Aug 2020 13:36:38: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 13:36:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 13:36:38: #2 number of paired peaks: 12 WARNING @ Sat, 08 Aug 2020 13:36:38: Too few paired peaks (12) 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 @ Sat, 08 Aug 2020 13:36:38: Process for pairing-model is terminated! BigWig に変換しました。 cut: /home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.20_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/SRX7917553/SRX7917553.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917553/SRX7917553.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling