Created
June 23, 2016 21:32
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Download SRA XSDs for use with biopython
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| #!/bin/bash | |
| # Trying to get biopython to parse SRA xml output. I think I need these XSDs produced by SRA to do this. | |
| if [ ! -e ~/.biopython/Bio/Entrez/XSDs ]; then mkdir -p ~/.biopython/Bio/Entrez/XSDs; fi | |
| cd ~/.biopython/Bio/Entrez/XSDs | |
| wget -O SRA.common.xsd "http://www.ncbi.nlm.nih.gov/viewvc/v1/trunk/sra/doc/SRA_1-5/SRA.common.xsd?view=co" | |
| wget -O SRA.submission.xsd "http://www.ncbi.nlm.nih.gov/viewvc/v1/trunk/sra/doc/SRA_1-5/SRA.submission.xsd?view=co" | |
| wget -O SRA.study.xsd "http://www.ncbi.nlm.nih.gov/viewvc/v1/trunk/sra/doc/SRA_1-5/SRA.study.xsd?view=co" | |
| wget -O SRA.sample.xsd "http://www.ncbi.nlm.nih.gov/viewvc/v1/trunk/sra/doc/SRA_1-5/SRA.sample.xsd?view=co" | |
| wget -O SRA.experiment.xsd "http://www.ncbi.nlm.nih.gov/viewvc/v1/trunk/sra/doc/SRA_1-5/SRA.experiment.xsd?view=co" | |
| wget -O SRA.run.xsd "http://www.ncbi.nlm.nih.gov/viewvc/v1/trunk/sra/doc/SRA_1-5/SRA.run.xsd?view=co" | |
| wget -O SRA.analysis.xsd "http://www.ncbi.nlm.nih.gov/viewvc/v1/trunk/sra/doc/SRA_1-5/SRA.analysis.xsd?view=co" |
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