It doesn’t keep the hydrogens as explicit. The second program I’m using requires all atoms including hydrogens to be explicit. I couldn’t find the option for this, but the chemical file writer node does keep these hydrogens.
I did find a workaround, but it might not work for all cases. My compound names were in another column, so I concatenated the two columns with the Column Aggregator node, then used the string to compound node from Erlwood. This gave me my compounds with explicit hydrogens and with a compound name.
But if there is an option in the SDF writer that keeps all atoms explicit that would be great.