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ODM-12805 compressed cell expression import #476

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Merged
genestack-okunitsyn merged 4 commits into from
Oct 7, 2025
Merged

ODM-12805 compressed cell expression import #476

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b8405e2
ODM-12805 Added supported extensions to /api/v1/jobs/import/expressio…
marijan-mihaljev Oct 6, 2025
089f139
ODM-12805 Changed order for Format and Extension in /api/v1/jobs/impo…
marijan-mihaljev Oct 6, 2025
4147778
ODM-12805 Removed 'plain text' from Format in /api/v1/jobs/import/exp…
marijan-mihaljev Oct 6, 2025
c020850
Merge branch 'develop' into feature/ODM-12805-compressed-cell-express…
natalyatodorova Oct 6, 2025
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8 changes: 4 additions & 4 deletions openapi/v1/job.yaml
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Expand Up @@ -381,8 +381,8 @@ paths:
## Metadata
It is also possible to optionally supply the URL of a metadata file. This metadata will be used as the original metadata for the created objects. The file is expected to contain single record with metadata describing the uploaded signal file.
## Metadata file format
* Extension: any, `.zip` and `.gz` extensions are treated as archives and get decompressed
* Format: plain text, Tab-separated format (TSV), attribute names and record values are separated with tabs (`U+0009`), lines are separated with `CRLF` sequence (`U+000D U+000A`)
* Format: Gene Cluster Text (GCT) and Tab-separated format (TSV), attribute names and record values are separated with tabs (`U+0009`), lines are separated with `CRLF` sequence (`U+000D U+000A`)
* Extension: `.zip`, `.gz`, `.br`, `.lz4` are supported, treated as archives and get decompressed
* Header: the first line is treated as table header that contains attribute names
* Records: the second line contains the values for each of the attributes described in the header line. Values represent single string or list of strings. List values are separated using the "pipe" `|` (`U+007C`) separator. Values are trimmed of whitespace before parsing, and a literal `|` (`U+007C`) character may be escaped by repeating it twice.
* Skip zeros in original data file: If this option is selected, zeros in the file will be ignored, thus conserving time and space. This option is particularly useful for handling very sparse data such as Single Cell data.
Expand Down Expand Up @@ -425,8 +425,8 @@ paths:
## Metadata
It is also possible to optionally supply the URL of a metadata file. This metadata will be used as the original metadata for the created objects. The file is expected to contain single record with metadata describing the uploaded signal file.
## Metadata file format
* Extension: any, `.zip` and `.gz` extensions are treated as archives and get decompressed
* Format: plain text, Tab-separated format (TSV), attribute names and record values are separated with tabs (`U+0009`), lines are separated with `CRLF` sequence (`U+000D U+000A`)
* Format: Gene Cluster Text (GCT) and Tab-separated format (TSV), attribute names and record values are separated with tabs (`U+0009`), lines are separated with `CRLF` sequence (`U+000D U+000A`)
* Extension: `.zip`, `.gz`, `.br`, `.lz4` are supported, treated as archives and get decompressed
* Header: the first line is treated as table header that contains attribute names
* Records: the second line contains the values for each of the attributes described in the header line. Values represent single string or list of strings. List values are separated using the "pipe" `|` (`U+007C`) separator. Values are trimmed of whitespace before parsing, and a literal `|` (`U+007C`) character may be escaped by repeating it twice.
* Skip zeros in original data file: If this option is selected, zeros in the file will be ignored, thus conserving time and space. This option is particularly useful for handling very sparse data such as Single Cell data.
Expand Down
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