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>> 2024-08-28 13:49:46,368 [INFO]: sra2isatab.py(sra_to_isatab_batch_convert:106) >> This function uses The Saxon XSLT XQuery Processor from Saxonica Limited (http://www.saxonica.com/)
>> 2024-08-28 13:49:46,371 [INFO]: sra2isatab.py(sra_to_isatab_batch_convert:114) >> Destination dir is: [/var/folders/jf/chyv7rv55y73v_zyt1zh_7c40000gn/T/tmpjconbek4](https://file+.vscode-resource.vscode-cdn.net/var/folders/jf/chyv7rv55y73v_zyt1zh_7c40000gn/T/tmpjconbek4)
Syntax error at char 177 near {...IMENT')]/following-sibling:...} in expression in xsl:variable/@select on line 39 column 233 of extract-studies-rice.xsl:
XPST0003: expected ")", found "<eof>"
Syntax error at char 64 near {....uk/ena/browser/api/xml/', ...} in expression in xsl:value-of/@select on line 43 column 106 of extract-studies-rice.xsl:
XPST0003: expected ")", found "<eof>"
Errors were reported during stylesheet compilation
>> 2024-08-28 13:49:47,175 [INFO]: sra2isatab.py(sra_to_isatab_batch_convert:130) >> Subprocess Saxon exited with code: 2
Accordingly, the resulting zipped_bytes is empty: len(zipped_bytes.getvalue()) returns 0.
The saxon9he.jar, which is missing from the develop branch, was downloaded from the master wget https://github.com/ISA-tools/isa-api/raw/develop/isatools/net/resources/saxon9/s axon9he.jar. I tested several other datasets, with the same error. I was using the develop branch, as the master does not with more recent software versions.
Any tips to get this working?
The text was updated successfully, but these errors were encountered:
I am testing the functionality from sra_to_isatab_batch_convert:
Which outputs:
Accordingly, the resulting zipped_bytes is empty:
len(zipped_bytes.getvalue())
returns 0.The saxon9he.jar, which is missing from the develop branch, was downloaded from the master
wget https://github.com/ISA-tools/isa-api/raw/develop/isatools/net/resources/saxon9/s axon9he.jar
. I tested several other datasets, with the same error. I was using the develop branch, as the master does not with more recent software versions.Any tips to get this working?
The text was updated successfully, but these errors were encountered: