Remove seqwish temporary working directories from repository (#7)

These seqwish-* directories are temporary working files created by seqwish
during graph construction runs. They were accidentally committed and are
bloating the repository.

Removed:
- 36 files across 12 seqwish-* directories (~10MB total)
- Files: .sqa, .sqi, .sqq (seqwish's intermediate sequence alignment data)

Added to .gitignore:
- seqwish-*/ pattern to prevent future commits
- wfmash-*/ pattern (similar temp directories)

These temporary directories are automatically created by seqwish and should
never be tracked in version control.

Author: ekg

.gitignore

@@ -60,6 +60,10 @@ EOF < /dev/null
 seqwish/
 seqwish-paper/
 
+# Seqwish/wfmash temporary working directories
+seqwish-*/
+wfmash-*/
+
 # HLA-ZOO results directory
 hla_zoo_results/
 process_hla_zoo.sh