prediction output format selected:  gff (-G) 

geneid prediction run on:  H.sapiens genome 

geneid prediction using:  ensembl_4_28 version of H.sapiens genome 

geneidv1.1 output format selected: gff  

the masked contig sequence file "Homo_sapiens.latestgp.masked.fa" is to be broken into 24 files to be analyzed by geneid on aleph  


NOTE: the H.sapiens genome for ensembl_4_28 has already been downloaded and processed for -aleph-.  Only the prediction format: gff and geneid version: v1.1 will be implemented


Now running "get_ensembl_contigs.sh" on aleph


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End of geneid prediction, check that every contig has been analyzed for predictions by running "check_geneid_pred.sh":

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_1 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_10 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_11 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_12 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_13 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_14 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_15 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_16 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_17 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_18 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_19 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_2 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_20 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_21 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_22 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_23 

There are 3416 contigs in Homo_sapiens.latestgp.masked.fa_24 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_3 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_4 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_5 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_6 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_7 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_8 

There are 3395 contigs in Homo_sapiens.latestgp.masked.fa_9 

#########################


3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_1.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_10.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_11.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_12.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_13.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_14.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_15.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_16.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_17.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_18.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_19.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_2.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_20.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_21.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_22.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_23.gff.reports

3416/3416 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_24.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_3.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_4.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_5.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_6.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_7.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_8.gff.reports

3395/3395 predictions were obtained for contigs in Homo_sapiens.latestgp.masked.fa_9.gff.reports


######################

DONE


End of contig-prediction checking; Start formatting data for mysql database population (DAS) "format4mysql_das.sh":

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